Contacts of the helix formed by residues 383 - 413 (chain A) in PDB entry 3UON
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 LYS 383 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ARG* 5.1 9.0 - - - +
381A ARG* 3.8 3.3 + - - +
382A GLU* 1.3 74.7 - - - +
384A LYS* 1.3 61.6 + - - +
385A VAL* 3.6 26.8 - - + +
386A THR* 3.6 17.7 + - + +
387A ARG* 2.9 31.5 + - - +
1002A ASN* 4.4 14.2 - - - +
1004A PHE* 4.8 11.7 - - - +
1005A GLU* 3.6 24.0 + - - +
1064A GLU* 4.1 16.6 + - - -
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Residues in contact with LYS 384 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381A ARG* 3.7 19.2 - - - +
382A GLU 3.6 0.8 + - - -
383A LYS* 1.3 73.4 - - - +
385A VAL* 1.3 57.4 + - - +
387A ARG* 3.3 32.5 - - - +
388A THR* 2.9 36.1 + - - -
443A CYS 4.2 3.5 - - - +
444A ASN* 3.5 36.1 - - - +
445A ALA* 3.7 26.2 - - - +
446A THR* 4.4 10.5 - - - +
1060A LYS* 5.8 3.1 - - - +
1164A CL 3.7 23.2 - - + +
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Residues in contact with VAL 385 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ASN* 3.6 34.3 - - + +
121A ARG* 4.0 17.9 - - - +
383A LYS* 3.6 29.8 - - + +
384A LYS* 1.3 76.7 - - - +
386A THR* 1.3 71.8 + - + +
388A THR* 3.5 3.7 + - - -
389A ILE* 2.9 53.1 + - + +
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Residues in contact with THR 386 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ARG* 5.0 12.8 - - - +
382A GLU* 3.9 14.7 + - - +
383A LYS* 3.1 35.2 + - + -
385A VAL* 1.3 80.6 - - + +
387A ARG* 1.3 68.0 + - - +
389A ILE* 3.5 7.8 + - - +
390A LEU* 3.1 26.0 + - - +
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Residues in contact with ARG 387 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381A ARG* 3.2 42.4 - - - +
382A GLU* 3.4 29.8 + - + +
383A LYS 2.9 9.6 + - - +
384A LYS* 3.3 45.4 - - - +
386A THR* 1.3 85.4 + - - +
388A THR* 1.3 61.3 + - - +
390A LEU* 3.7 6.3 + - - +
391A ALA* 3.6 12.6 + - - +
443A CYS* 3.3 41.5 + - + +
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Residues in contact with THR 388 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 4.2 18.7 - - + +
384A LYS 2.9 23.9 + - - -
385A VAL* 3.8 4.9 - - - -
387A ARG* 1.3 75.6 - - - +
389A ILE* 1.3 68.0 + - + +
391A ALA* 3.1 5.7 + - - +
392A ILE* 3.0 35.5 + - + +
439A CYS* 4.9 2.1 + - + +
440A TYR* 4.1 22.4 - - + -
443A CYS* 3.6 24.1 + - + +
444A ASN* 4.5 8.5 + - - +
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Residues in contact with ILE 389 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 6.5 0.4 - - + -
117A ILE* 3.5 32.3 - - + -
121A ARG* 3.5 31.2 - - + +
206A TYR* 3.0 35.7 - - + +
385A VAL* 2.9 37.8 + - + +
386A THR* 3.5 6.5 + - - +
388A THR* 1.3 78.9 - - + +
390A LEU* 1.3 63.5 + - - +
392A ILE* 3.2 10.7 + - + +
393A LEU* 3.0 30.0 + - + +
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Residues in contact with LEU 390 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382A GLU* 5.6 5.4 - - - +
386A THR 3.1 18.3 + - - +
387A ARG* 3.9 6.3 - - - +
388A THR 3.2 0.2 - - - -
389A ILE* 1.3 78.2 - - - +
391A ALA* 1.3 62.9 + - - +
393A LEU* 3.2 13.6 + - + +
394A LEU* 2.9 43.4 + - + +
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Residues in contact with ALA 391 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387A ARG 3.6 2.5 + - - +
388A THR 3.1 8.6 + - - +
390A LEU* 1.3 78.5 - - - +
392A ILE* 1.3 63.5 + - - +
394A LEU* 3.4 11.0 + - - +
395A ALA* 2.9 27.8 + - - +
439A CYS* 4.0 21.6 - - + -
443A CYS* 3.9 25.4 - - - -
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Residues in contact with ILE 392 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 4.9 5.4 - - + -
65A LEU* 4.2 11.9 - - + -
114A LEU* 3.4 30.7 - - + -
117A ILE* 5.6 3.6 - - + -
388A THR* 3.0 29.3 + - + +
389A ILE* 3.2 10.3 + - - +
391A ALA* 1.3 77.2 - - - +
393A LEU* 1.3 57.0 + - + +
395A ALA* 3.7 4.1 - - - +
396A PHE* 2.9 28.4 + - + +
432A ASN* 4.9 0.3 + - - -
436A ASN* 4.1 19.6 - - - +
439A CYS* 4.5 10.1 - - + -
440A TYR* 3.3 36.8 - - + +
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Residues in contact with LEU 393 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A LEU* 4.3 23.8 - - + +
118A SER* 5.2 0.9 - - - +
202A MET* 4.3 27.6 - - + -
206A TYR* 3.7 40.6 - - + +
389A ILE* 3.0 23.2 + - + +
390A LEU* 3.6 14.1 - - + +
392A ILE* 1.3 74.7 - - - +
394A LEU* 1.3 67.1 + - + +
396A PHE* 3.0 7.9 + - + +
397A ILE* 2.8 28.1 + - + +
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Residues in contact with LEU 394 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390A LEU* 2.9 43.9 + - + +
391A ALA* 3.7 8.5 - - - +
393A LEU* 1.3 75.3 - - - +
395A ALA* 1.3 63.3 + - - +
397A ILE* 3.1 11.6 - - + +
398A ILE* 2.9 31.4 + - + +
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Residues in contact with ALA 395 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A ALA 2.9 18.7 + - - +
392A ILE* 3.7 4.9 - - - +
394A LEU* 1.3 75.1 - - - +
396A PHE* 1.3 56.0 + - - +
398A ILE* 3.1 11.2 - - - +
399A THR* 2.6 35.7 + - - +
432A ASN* 3.0 17.4 + - - +
435A ILE* 3.8 20.6 - - + -
436A ASN* 4.7 4.5 - - - +
439A CYS* 4.9 7.6 - - - -
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Residues in contact with PHE 396 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A SER* 5.9 1.8 - - - -
111A VAL* 3.6 27.8 - - + -
114A LEU* 3.4 30.3 - - + -
195A PHE* 3.4 30.1 - + - -
198A PRO* 6.5 0.4 - - + -
199A VAL* 3.9 17.9 - - + -
202A MET* 4.2 11.2 - - + -
392A ILE* 2.9 19.4 + - + +
393A LEU* 3.0 8.5 + - + +
395A ALA* 1.3 76.1 - - - +
397A ILE* 1.3 63.2 + - + +
399A THR* 3.1 0.6 + - - -
400A TRP* 3.0 71.8 + + - +
432A ASN* 3.3 13.0 - - - +
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Residues in contact with ILE 397 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A PHE* 5.2 5.8 - - + -
199A VAL* 5.2 16.8 - - + -
393A LEU 2.8 20.1 + - - +
394A LEU* 3.1 23.1 - - + +
396A PHE* 1.3 83.8 - - + +
398A ILE* 1.3 62.6 + - + +
400A TRP* 5.0 0.9 - - - -
401A ALA* 2.9 45.5 + - + +
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Residues in contact with ILE 398 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394A LEU* 2.9 29.1 + - + +
395A ALA* 3.1 18.6 - - - +
397A ILE* 1.3 79.9 - - + +
399A THR* 1.3 65.4 + - + +
401A ALA* 5.0 1.3 - - - -
402A PRO* 3.1 23.0 - - - +
428A LEU* 5.0 1.4 - - - +
435A ILE* 5.9 0.9 - - + -
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Residues in contact with THR 399 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A ALA 2.6 22.9 + - - +
398A ILE* 1.3 88.9 - - + +
400A TRP* 1.3 78.6 + - - +
401A ALA 3.6 0.2 - - - -
402A PRO* 3.7 6.0 - - - +
425A GLY 4.5 0.3 - - - +
428A LEU* 3.5 45.5 - - + +
429A CYS* 3.6 9.0 + - - -
431A ILE* 4.9 7.6 - - + -
432A ASN* 3.2 22.4 + - + +
435A ILE* 4.4 10.5 - - + -
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Residues in contact with TRP 400 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A SER* 3.6 39.5 - - - -
110A SER* 5.1 7.4 - - - -
111A VAL* 4.0 8.3 - - + -
195A PHE* 3.3 32.3 - + + -
396A PHE* 3.0 35.7 + + - +
399A THR* 1.3 106.8 + - - +
401A ALA* 1.3 63.3 + - - +
402A PRO* 3.4 0.9 - - - -
403A TYR* 3.4 3.3 + - - +
404A ASN* 2.7 29.9 + - - -
429A CYS* 4.0 30.0 + - + -
432A ASN* 3.6 17.2 + - - -
1162A QNB 3.1 55.2 - + - -
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Residues in contact with ALA 401 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195A PHE* 4.1 11.4 - - + -
397A ILE* 2.9 29.0 + - + +
398A ILE* 4.8 1.6 - - - +
400A TRP* 1.3 74.0 - - - +
402A PRO* 1.3 62.2 - - + +
404A ASN* 3.1 1.9 + - - +
405A VAL* 2.7 40.3 + - + +
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Residues in contact with PRO 402 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A ILE 3.1 25.8 - - - +
399A THR 3.7 3.8 - - - +
400A TRP 3.4 3.4 - - - -
401A ALA* 1.3 93.8 - - + +
403A TYR* 1.3 62.0 + - - +
405A VAL* 3.1 12.5 - - + +
406A MET* 3.0 30.1 + - - +
425A GLY* 5.0 4.7 - - - -
428A LEU* 3.6 30.5 - - + -
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Residues in contact with TYR 403 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A TYR* 4.3 5.2 + - - -
399A THR 4.7 0.2 + - - -
400A TRP 3.4 3.9 + - - +
401A ALA 3.3 0.8 - - - -
402A PRO* 1.3 78.9 - - - +
404A ASN* 1.3 66.4 + - - +
406A MET* 2.8 42.2 + - + +
407A VAL* 3.0 21.1 + - + +
422A TRP* 3.9 19.9 - + - -
425A GLY* 3.9 19.2 - - - +
426A TYR* 3.4 42.2 + + - -
429A CYS* 3.6 22.9 - - - -
1162A QNB 3.7 48.9 - + + +
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Residues in contact with ASN 404 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A ALA* 4.0 9.0 - - - +
195A PHE* 3.4 34.4 - - + +
196A TYR* 3.0 23.6 + - + +
400A TRP* 2.7 30.8 + - - +
401A ALA* 3.9 1.6 - - - +
403A TYR* 1.3 77.5 - - - +
405A VAL* 1.3 60.8 + - - +
406A MET 3.0 1.3 - - - -
407A VAL* 3.1 8.1 + - - +
408A LEU 3.1 20.6 + - - -
1162A QNB 2.6 49.1 + - - -
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Residues in contact with VAL 405 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A TYR* 3.6 9.3 + - - +
401A ALA* 2.7 20.8 + - + +
402A PRO* 3.1 23.6 - - + +
404A ASN* 1.3 72.7 - - - +
406A MET* 1.3 56.7 + - + +
408A LEU* 3.6 17.2 - - + +
409A ILE* 3.0 41.6 + - + +
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Residues in contact with MET 406 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402A PRO* 3.0 16.9 + - - +
403A TYR* 2.8 33.0 - - + +
405A VAL* 1.3 77.5 - - + +
407A VAL* 1.3 56.8 + - - +
409A ILE* 3.6 6.6 + - - +
410A ASN* 2.9 28.9 + - - +
417A ILE* 3.7 30.2 - - + +
421A VAL* 3.4 29.4 - - + +
422A TRP* 3.4 45.6 - - + -
425A GLY* 3.7 15.5 - - - -
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Residues in contact with VAL 407 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ALA 5.4 0.4 - - - +
187A THR* 4.1 17.0 - - + +
188A PHE* 3.8 36.0 - - + +
191A ALA* 4.3 6.5 - - + -
403A TYR* 3.0 36.6 + - + +
404A ASN* 3.1 10.3 + - - +
406A MET* 1.3 72.8 - - - +
408A LEU* 1.3 67.2 + - - +
410A ASN* 3.0 21.3 + - + +
411A THR* 3.2 10.0 + - - -
422A TRP* 4.1 11.4 - - + -
1162A QNB 4.5 10.3 - - + -
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Residues in contact with LEU 408 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A PHE* 3.4 41.9 - - + -
196A TYR* 4.0 11.4 - - + +
404A ASN 3.1 11.7 + - - +
405A VAL* 3.6 22.4 - - + +
407A VAL* 1.3 77.6 - - - +
409A ILE* 1.3 69.1 + - + +
411A THR* 2.9 33.5 + - + +
412A PHE* 4.1 9.0 - - + -
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Residues in contact with ILE 409 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405A VAL* 3.0 31.0 + - + +
406A MET* 3.9 4.0 - - - +
408A LEU* 1.3 81.9 - - + +
410A ASN* 1.3 62.6 + - - +
411A THR 3.0 1.8 + - - -
412A PHE* 3.3 32.1 + - + -
413A CYS 3.1 22.3 + - - +
416A CYS* 4.5 9.0 - - + -
417A ILE* 3.8 26.7 - - + -
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Residues in contact with ASN 410 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ALA* 3.8 22.9 - - - +
187A THR* 6.2 1.4 - - - +
406A MET 2.9 15.9 + - - +
407A VAL* 3.0 14.6 + - - +
409A ILE* 1.3 76.1 - - - +
411A THR* 1.3 62.4 + - - +
412A PHE 3.3 0.4 + - - -
413A CYS 3.6 13.1 + - - -
414A ALA* 3.6 31.9 + - - +
417A ILE* 4.6 3.9 - - + +
422A TRP* 3.8 26.1 + - + -
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Residues in contact with THR 411 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A ALA* 4.6 12.6 + - - +
185A ALA* 4.6 12.1 + - - +
188A PHE* 4.1 27.7 - - + +
407A VAL 3.2 7.3 + - - -
408A LEU* 2.9 29.2 + - + +
410A ASN* 1.3 82.1 - - - +
412A PHE* 1.3 78.0 + - + +
----------------------------------------------------------
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Residues in contact with PHE 412 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
408A LEU* 4.1 10.8 - - + -
409A ILE* 3.6 41.3 - - + -
411A THR* 1.3 94.0 - - + +
413A CYS* 1.3 75.7 + - + +
414A ALA 4.3 0.7 - - - -
416A CYS* 5.5 1.6 - - - -
----------------------------------------------------------
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Residues in contact with CYS 413 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
409A ILE* 3.1 15.8 + - - +
410A ASN* 3.6 6.6 - - - -
411A THR 3.6 0.4 - - - -
412A PHE* 1.3 99.0 - - + +
414A ALA* 1.3 62.4 + - - +
415A PRO* 4.1 9.6 - - - -
416A CYS* 2.0 62.2 - - + +
417A ILE* 4.4 1.4 - - - +
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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