Contacts of the helix formed by residues 355 - 405 (chain A) in PDB entry 1GK6
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 MET 355 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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356A LYS* 1.3 70.3 + - + +
357A GLN* 3.4 33.2 - - + +
358A LEU* 3.5 27.3 - - - +
359A GLU* 4.1 10.9 - - - +
355B MET* 2.8 48.6 - - - +
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Residues in contact with LYS 356 (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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355A MET* 1.3 76.8 - - + +
357A GLN* 1.3 65.8 + - - +
358A LEU 3.3 1.3 - - - -
359A GLU* 3.2 26.0 + - + +
360A ASP* 2.8 60.5 + - - +
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Residues in contact with GLN 357 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A MET* 3.4 32.7 - - + +
356A LYS* 1.3 82.5 - - - +
358A LEU* 1.3 56.7 + - - +
360A ASP* 3.1 12.2 + - + +
361A LYS* 2.8 34.9 + - + +
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Residues in contact with LEU 358 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A MET* 3.5 18.7 - - - +
357A GLN* 1.3 79.6 - - + +
359A GLU* 1.3 56.9 + - - +
361A LYS* 3.8 5.6 - - + +
362A VAL* 2.9 35.6 + - - +
355B MET* 3.5 37.0 - - + +
358B LEU* 3.8 16.8 - - + +
359B GLU* 4.0 28.3 - - + +
362B VAL* 4.1 22.6 - - + +
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Residues in contact with GLU 359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A MET 4.1 9.3 - - - +
356A LYS* 3.2 38.3 + - + +
358A LEU* 1.3 73.2 - - - +
360A ASP* 1.3 67.3 + - - +
362A VAL* 3.3 7.3 + - - +
363A GLU* 2.9 24.7 + - - +
355B MET* 5.8 0.7 - - - +
358B LEU* 4.4 20.6 - - + +
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Residues in contact with ASP 360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A LYS* 2.8 49.2 + - - +
357A GLN* 3.4 14.0 - - + +
359A GLU* 1.3 78.5 - - - +
361A LYS* 1.3 56.9 + - - +
363A GLU* 3.3 16.3 + - - +
364A GLU* 2.9 29.6 + - - +
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Residues in contact with LYS 361 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A GLN* 2.8 21.2 + - + +
358A LEU* 3.8 7.6 - - + +
360A ASP* 1.3 74.5 - - - +
362A VAL* 1.3 60.6 + - - +
364A GLU* 2.8 34.3 + - - +
365A LEU* 2.9 47.7 + - + +
362B VAL* 3.6 30.7 - - + -
366B LEU* 5.5 4.0 - - + -
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Residues in contact with VAL 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A LEU 2.9 23.2 + - - +
359A GLU* 3.6 6.3 - - - +
361A LYS* 1.3 75.4 - - - +
363A GLU* 1.3 57.5 + - - +
365A LEU* 4.8 0.7 - - - -
366A LEU* 3.0 48.0 + - + +
358B LEU* 4.1 23.3 - - + +
361B LYS* 4.4 16.4 - - + -
362B VAL* 3.4 21.3 - - + +
365B LEU* 3.9 15.5 - - + +
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Residues in contact with GLU 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A GLU 2.9 17.6 + - - +
360A ASP* 3.6 15.5 - - - +
362A VAL* 1.3 75.6 - - - +
364A GLU* 1.3 64.6 + - - +
366A LEU* 3.9 7.5 - - - +
367A SER* 3.0 34.2 + - - +
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Residues in contact with GLU 364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
360A ASP 2.9 17.0 + - - +
361A LYS* 2.8 40.5 + - - +
363A GLU* 1.3 78.0 - - - +
365A LEU* 1.3 61.0 + - - +
367A SER* 3.4 6.2 + - - -
368A LYS* 2.7 66.6 + - + +
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Residues in contact with LEU 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
361A LYS* 2.9 43.1 + - + +
362A VAL 4.0 2.2 - - - +
364A GLU* 1.3 77.8 - - + +
366A LEU* 1.3 62.2 + - - +
367A SER 3.1 1.3 - - - -
368A LYS* 4.0 10.5 - - + +
369A ASN* 2.8 37.1 + - - +
362B VAL* 3.8 16.6 - - + +
365B LEU* 3.7 31.4 - - + +
366B LEU* 3.8 28.7 - - + -
369B ASN* 4.5 23.6 - - + +
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Residues in contact with LEU 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A VAL* 3.0 37.9 + - + +
363A GLU* 3.9 6.7 - - - +
365A LEU* 1.3 76.1 - - - +
367A SER* 1.3 58.7 + - - +
369A ASN* 3.9 5.1 - - + +
370A TYR* 3.0 29.1 + - - +
361B LYS* 6.2 2.9 - - + +
365B LEU* 3.7 26.5 - - + -
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Residues in contact with SER 367 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A GLU* 3.0 26.8 + - - +
364A GLU* 3.5 6.5 - - - -
366A LEU* 1.3 75.1 - - - +
368A LYS* 1.3 66.2 + - - +
370A TYR* 3.3 7.1 + - - +
371A HIS* 3.2 36.1 + - - -
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Residues in contact with LYS 368 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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364A GLU* 2.7 57.5 + - + +
365A LEU* 4.0 10.3 - - + +
367A SER* 1.3 72.3 - - - +
369A ASN* 1.3 58.3 + - - +
371A HIS* 3.3 7.7 + - - +
372A LEU* 2.9 35.9 + - + +
369B ASN* 4.0 17.0 - - - +
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Residues in contact with ASN 369 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A LEU 2.8 24.8 + - - +
366A LEU* 3.9 5.7 - - + +
368A LYS* 1.3 71.2 - - - +
370A TYR* 1.3 60.1 + - - +
372A LEU* 3.3 3.4 + - - +
373A GLU* 2.8 39.1 + - - +
365B LEU* 3.4 35.4 + - - +
368B LYS* 3.8 15.6 - - - +
369B ASN* 3.0 32.5 - - - +
372B LEU* 3.9 19.6 - - + +
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Residues in contact with TYR 370 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A LEU 3.0 19.3 + - - +
367A SER* 3.5 7.2 - - - +
369A ASN* 1.3 74.6 - - - +
371A HIS* 1.3 79.8 + + - +
373A GLU* 3.2 21.0 + - - +
374A ASN* 3.0 62.4 + - - +
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Residues in contact with HIS 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A SER* 3.2 29.9 + - - -
368A LYS* 3.9 7.6 - - - +
370A TYR* 1.3 97.6 - + - +
372A LEU* 1.3 63.9 + - + +
374A ASN* 3.3 16.5 + - - +
375A GLU* 3.1 21.0 + - - +
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Residues in contact with LEU 372 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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368A LYS* 2.9 24.3 + - + +
369A ASN* 3.7 5.6 - - - +
371A HIS* 1.3 75.4 - - + +
373A GLU* 1.3 60.1 + - - +
375A GLU* 3.2 16.8 + - - +
376A VAL* 2.8 33.9 + - - +
369B ASN* 3.5 26.5 - - - +
372B LEU* 4.0 20.6 - - + -
373B GLU* 3.9 29.2 - - + +
376B VAL* 4.1 20.7 - - + +
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Residues in contact with GLU 373 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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369A ASN* 2.8 26.1 + - - +
370A TYR* 3.4 25.7 - - - +
372A LEU* 1.3 73.6 - - - +
374A ASN* 1.3 60.0 + - - +
376A VAL* 3.3 9.6 + - - +
377A ALA* 2.9 29.6 + - - +
372B LEU* 3.9 22.5 - - + +
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Residues in contact with ASN 374 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A TYR* 3.0 58.4 + - - +
371A HIS* 3.5 20.1 + - - +
372A LEU 3.3 0.2 - - - -
373A GLU* 1.3 79.1 - - - +
375A GLU* 1.3 57.9 + - - +
377A ALA* 3.4 7.5 + - - +
378A ARG* 3.0 26.7 + - - +
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Residues in contact with GLU 375 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A HIS 3.1 10.5 + - - +
372A LEU* 3.5 21.6 - - - +
374A ASN* 1.3 76.8 - - - +
376A VAL* 1.3 65.5 + - - +
378A ARG* 3.1 7.8 + - + +
379A LEU* 2.9 37.2 + - + +
376B VAL* 3.9 17.5 - - + +
380B LYS* 3.3 28.5 + - - -
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Residues in contact with VAL 376 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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372A LEU 2.8 20.9 + - - +
373A GLU* 3.3 10.3 + - - +
375A GLU* 1.3 73.6 - - - +
377A ALA* 1.3 58.4 + - - +
379A LEU* 3.3 2.5 + - - +
380A LYS* 2.9 57.8 + - + +
372B LEU* 4.2 18.2 - - + +
375B GLU* 4.0 21.3 - - + -
376B VAL* 3.6 22.4 - - + +
379B LEU* 3.9 12.1 - - + +
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Residues in contact with ALA 377 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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373A GLU 2.9 13.3 + - - +
374A ASN* 3.6 10.3 - - - +
376A VAL* 1.3 77.3 - - - +
378A ARG* 1.3 64.7 + - - +
380A LYS* 3.4 9.0 + - - +
381A LYS* 3.0 22.3 + - - +
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Residues in contact with ARG 378 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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374A ASN 3.0 15.0 + - - +
375A GLU* 3.1 12.3 + - + +
377A ALA* 1.3 76.8 - - - +
379A LEU* 1.3 58.0 + - + +
381A LYS* 3.1 17.4 + - - +
382A LEU* 2.9 52.8 + - + +
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Residues in contact with LEU 379 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
375A GLU* 2.9 40.6 + - + +
376A VAL 3.7 3.4 - - - +
378A ARG* 1.3 75.9 - - + +
380A LYS* 1.3 60.4 + - - +
382A LEU* 3.2 16.6 + - + +
383A VAL* 2.8 34.5 + - - +
376B VAL* 3.9 29.8 - - + +
379B LEU* 3.8 20.6 - - + -
380B LYS* 4.0 20.2 - - + -
383B VAL* 4.0 22.1 - - + +
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Residues in contact with LYS 380 (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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376A VAL* 2.9 42.4 + - + +
377A ALA* 3.8 7.0 - - - +
378A ARG 3.3 0.2 - - - -
379A LEU* 1.3 75.4 - - - +
381A LYS* 1.3 61.2 + - - +
383A VAL* 3.4 7.9 + - - +
384A GLY* 3.0 20.1 + - - -
375B GLU* 3.8 18.7 + - - -
378B ARG* 5.0 2.7 - - - +
379B LEU* 3.8 16.2 - - + -
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Residues in contact with LYS 381 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A ALA 3.0 13.9 + - - +
378A ARG* 3.1 20.6 + - - +
380A LYS* 1.3 73.6 - - - +
382A LEU* 1.3 64.5 + - + +
384A GLY* 3.2 2.2 + - - -
385A ASP* 2.8 60.4 + - - +
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Residues in contact with LEU 382 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378A ARG* 2.9 43.8 + - + +
379A LEU* 3.5 23.3 - - + +
381A LYS* 1.3 83.7 - - + +
383A VAL* 1.3 57.8 + - - +
385A ASP* 3.2 12.5 + - + +
386A LEU* 2.9 37.1 + - + +
383B VAL* 4.4 18.8 - - + -
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Residues in contact with VAL 383 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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379A LEU 2.8 23.4 + - - +
380A LYS* 3.6 7.6 - - - +
382A LEU* 1.3 70.1 - - - +
384A GLY* 1.3 55.4 + - - +
386A LEU* 3.2 3.5 + - - +
387A LEU* 2.7 54.7 + - + +
379B LEU* 4.1 14.1 - - + -
382B LEU* 3.9 36.1 - - + -
383B VAL* 3.7 22.7 - - + +
386B LEU* 4.1 10.7 - - + +
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Residues in contact with GLY 384 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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380A LYS 3.0 14.3 + - - -
381A LYS* 3.2 3.3 + - - -
383A VAL* 1.3 77.9 - - - +
385A ASP* 1.3 64.4 + - - +
387A LEU* 3.3 10.3 + - - +
388A ASN* 3.1 32.2 + - - +
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Residues in contact with ASP 385 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
381A LYS* 2.8 52.0 + - - +
382A LEU* 3.5 11.4 - - + +
384A GLY* 1.3 78.7 - - - +
386A LEU* 1.3 58.5 + - + +
388A ASN* 3.2 13.7 + - - +
389A VAL* 3.1 32.5 + - + +
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Residues in contact with LEU 386 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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382A LEU* 2.9 27.5 + - + +
383A VAL 3.7 3.1 - - - +
385A ASP* 1.3 71.3 - - + +
387A LEU* 1.3 62.3 + - - +
389A VAL* 3.7 8.9 - - + +
390A LYS* 2.9 29.8 + - - +
383B VAL* 3.9 36.6 - - + +
386B LEU* 3.9 28.5 - - + +
387B LEU* 3.9 30.1 - - + -
390B LYS* 4.4 18.8 - - + -
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Residues in contact with LEU 387 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
383A VAL* 2.7 40.8 + - + +
384A GLY* 3.7 8.3 - - - +
385A ASP 3.2 0.2 - - - -
386A LEU* 1.3 75.4 - - - +
388A ASN* 1.3 60.3 + - - +
390A LYS* 3.4 12.1 + - + +
391A MET* 3.1 27.1 + - - +
382B LEU* 6.0 1.8 - - + -
386B LEU* 3.8 30.1 - - + -
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Residues in contact with ASN 388 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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384A GLY 3.1 19.4 + - - +
385A ASP* 3.7 12.3 + - - +
386A LEU 3.2 0.4 - - - -
387A LEU* 1.3 77.0 - - - +
389A VAL* 1.3 67.2 + - + +
391A MET* 3.3 23.5 + - + +
392A ALA* 3.2 22.0 + - - +
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Residues in contact with VAL 389 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
385A ASP* 3.1 18.4 + - + +
386A LEU* 3.4 14.1 + - + +
388A ASN* 1.3 77.1 - - + +
390A LYS* 1.3 64.0 + - - +
392A ALA* 3.3 5.1 + - - +
393A LEU* 3.0 41.0 + - + +
390B LYS* 4.1 31.6 - - + -
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Residues in contact with LYS 390 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
386A LEU 2.9 18.0 + - - +
387A LEU* 3.6 13.9 - - + +
388A ASN 3.2 0.2 - - - -
389A VAL* 1.3 76.0 - - - +
391A MET* 1.3 60.5 - - - +
393A LEU* 3.3 2.7 + - - +
394A ASP* 2.7 64.2 + - - +
386B LEU* 4.3 16.6 - - + -
389B VAL* 3.8 27.1 - - + -
390B LYS* 6.3 2.0 - - + +
393B LEU* 3.8 17.9 - - + -
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Residues in contact with MET 391 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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387A LEU 3.1 12.6 + - - +
388A ASN* 3.3 30.0 + - + +
390A LYS* 1.3 76.9 - - - +
392A ALA* 1.3 63.6 + - - +
394A ASP* 3.7 7.0 - - + +
395A ILE* 3.1 45.0 + - + +
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Residues in contact with ALA 392 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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388A ASN 3.2 13.6 + - - +
389A VAL* 3.9 8.1 - - - +
391A MET* 1.3 78.2 - - - +
393A LEU* 1.3 64.1 + - + +
395A ILE* 3.5 6.7 + - - +
396A GLU* 3.3 22.2 + - - +
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Residues in contact with LEU 393 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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389A VAL* 3.0 35.1 + - + +
390A LYS* 3.3 3.3 + - - +
392A ALA* 1.3 78.3 - - + +
394A ASP* 1.3 63.6 + - - +
396A GLU* 3.3 7.7 + - - +
397A ILE* 3.0 28.6 + - - +
390B LYS* 4.3 11.4 - - + +
393B LEU* 3.9 29.6 - - + -
394B ASP* 3.6 24.5 - - - +
397B ILE* 3.4 26.6 - - + +
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Residues in contact with ASP 394 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390A LYS* 2.7 56.5 + - - +
391A MET* 3.7 7.8 - - + +
393A LEU* 1.3 73.9 - - - +
395A ILE* 1.3 59.4 + - + +
397A ILE* 3.4 5.5 + - - +
398A ALA* 2.9 31.5 + - - +
393B LEU* 3.4 26.2 - - - +
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Residues in contact with ILE 395 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
391A MET* 3.1 32.2 + - + +
392A ALA* 3.5 5.6 + - - +
394A ASP* 1.3 77.8 - - + +
396A GLU* 1.3 55.7 + - - +
398A ALA* 3.8 5.7 - - + +
399A THR* 2.7 47.0 + - - +
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Residues in contact with GLU 396 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
392A ALA 3.3 11.8 + - - +
393A LEU* 3.7 10.4 - - - +
394A ASP 3.3 0.6 - - - -
395A ILE* 1.3 77.4 - - - +
397A ILE* 1.3 62.4 + - - +
399A THR* 3.2 7.2 + - - -
400A TYR* 2.6 68.6 + - + -
397B ILE* 3.6 28.8 - - + +
401B ARG* 3.7 8.8 + - - -
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Residues in contact with ILE 397 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393A LEU 3.0 19.6 + - - +
394A ASP* 3.9 4.7 - - - +
396A GLU* 1.3 75.2 - - - +
398A ALA* 1.3 63.1 + - - +
400A TYR* 3.2 9.6 + - - +
401A ARG* 3.0 63.5 + - + +
393B LEU* 3.4 45.8 - - + +
396B GLU* 3.9 9.0 - - + +
397B ILE* 3.3 33.7 - - + +
400B TYR* 4.4 6.5 - - + -
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Residues in contact with ALA 398 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
394A ASP 2.9 19.1 + - - +
395A ILE* 3.8 7.4 - - + +
397A ILE* 1.3 77.5 - - - +
399A THR* 1.3 59.6 + - - +
401A ARG* 3.5 9.9 + - - +
402A LYS* 3.0 27.4 + - - +
407A GLU 4.5 1.9 - - - +
409A SER* 6.1 6.3 - - - +
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Residues in contact with THR 399 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395A ILE* 2.7 31.3 + - - +
396A GLU* 3.6 6.7 - - - -
397A ILE 3.2 0.2 - - - -
398A ALA* 1.3 76.3 - - - +
400A TYR* 1.3 62.4 + - + +
402A LYS* 3.1 9.2 + - + +
403A LEU* 2.8 54.9 + - + +
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Residues in contact with TYR 400 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396A GLU* 2.6 59.8 + - + -
397A ILE* 3.2 6.3 + - - +
399A THR* 1.3 79.7 - - + +
401A ARG* 1.3 55.7 + - - +
403A LEU* 4.6 13.5 - - + -
404A LEU* 2.8 43.9 + - + +
397B ILE* 4.6 5.2 - - + -
400B TYR* 3.7 48.7 - + + -
401B ARG* 3.9 17.1 + - + +
404B LEU* 3.6 26.8 - - + +
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Residues in contact with ARG 401 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A ILE* 3.0 42.5 + - - +
398A ALA* 3.7 9.2 - - - +
400A TYR* 1.3 75.6 - - - +
402A LYS* 1.3 62.3 + - - +
405A GLU* 3.0 31.6 + - - +
407A GLU* 3.0 49.7 + - + +
396B GLU* 2.8 38.4 + - - +
400B TYR* 3.1 26.9 + - - +
----------------------------------------------------------
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Residues in contact with LYS 402 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A ALA 3.0 13.6 + - - +
399A THR* 3.5 13.0 - - + +
400A TYR 3.1 0.4 - - - -
401A ARG* 1.3 78.4 - - - +
403A LEU* 1.3 69.2 + - + +
406A GLY* 3.1 21.2 + - - -
407A GLU 3.1 17.0 + - - +
408A GLU* 3.3 43.8 + - - +
409A SER 5.7 0.9 - - - +
----------------------------------------------------------
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Residues in contact with LEU 403 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
399A THR* 2.8 43.5 + - + +
400A TYR* 4.0 14.6 - - + +
402A LYS* 1.3 78.9 - - + +
404A LEU* 1.4 72.5 + - + +
406A GLY 4.8 0.7 + - - -
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Residues in contact with LEU 404 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
400A TYR* 2.8 26.0 + - + +
403A LEU* 1.4 88.8 - - + +
405A GLU* 1.3 68.1 + - + +
400B TYR* 4.0 26.2 - - + +
403B LEU* 6.3 1.8 - - + -
404B LEU* 3.9 42.4 - - + -
----------------------------------------------------------
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Residues in contact with GLU 405 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A ARG* 3.0 24.0 + - - +
404A LEU* 1.3 86.8 - - + +
406A GLY* 1.3 61.0 + - - +
407A GLU* 3.1 21.3 + - + +
400B TYR* 2.4 38.8 + - + -
----------------------------------------------------------
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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