Contacts of the helix formed by residues 343 - 384 (chain A) in PDB entry 2MAK
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 ALA 343 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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342A TYR* 1.3 87.7 - - - +
344A PRO* 1.3 67.8 - - + +
345A GLU* 3.0 13.2 + - + -
346A ALA* 3.2 10.7 + - - +
291B ASP* 3.7 11.8 - - + +
-4C SER 2.8 21.4 + - - +
-3C HIS* 3.7 39.7 - - + +
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Residues in contact with PRO 344 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339A SER* 5.4 2.0 - - - +
342A TYR* 5.6 0.2 - - + -
343A ALA* 1.3 82.9 - - + +
345A GLU* 1.3 58.0 + - - +
346A ALA 3.1 0.9 - - - -
347A LEU* 3.1 13.1 + - + +
348A GLN* 2.8 38.7 + - - +
285B GLN* 4.9 10.8 - - + +
289B ARG* 3.1 57.2 - - + +
291B ASP* 3.3 23.6 - - + +
-3C HIS* 6.1 0.2 - - + -
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Residues in contact with GLU 345 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A ALA* 3.0 9.8 + - + -
344A PRO* 1.3 80.0 - - - +
346A ALA* 1.3 60.3 + - - +
348A GLN* 3.2 18.0 + - - +
349A LYS* 2.6 71.1 + - - +
-3C HIS* 2.7 55.3 + - + +
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Residues in contact with ALA 346 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A LEU* 4.8 2.9 - - + +
342A TYR* 3.5 32.8 - - + -
343A ALA 3.2 3.4 + - - +
344A PRO 3.1 0.4 - - - -
345A GLU* 1.3 83.1 - - + +
347A LEU* 1.3 51.2 + - - +
349A LYS* 3.4 9.4 + - - +
350A TRP* 2.8 35.8 + - - +
-3C HIS 4.9 8.3 - - - +
312C SER* 5.2 7.0 - - - +
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Residues in contact with LEU 347 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A LEU* 4.3 2.5 - - + -
336A GLU* 4.6 0.4 - - - -
339A SER* 3.9 24.7 - - - -
342A TYR* 4.6 1.6 - - - -
343A ALA 4.2 0.6 + - - -
344A PRO* 3.1 15.3 + - + +
346A ALA* 1.3 77.1 - - - +
348A GLN* 1.3 60.6 - - + +
350A TRP* 3.3 28.9 - - + -
351A LEU* 2.7 38.8 + - + +
281B ARG* 4.3 18.4 - - + +
284B ASP* 3.2 30.5 - - + +
285B GLN* 4.0 37.0 - - + +
288B HIS 5.3 0.2 - - - +
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Residues in contact with GLN 348 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344A PRO* 2.8 28.2 + - - +
345A GLU* 3.3 18.2 - - - +
347A LEU* 1.3 84.9 - - + +
349A LYS* 1.3 54.5 + - + +
351A LEU* 3.7 3.6 - - - +
352A GLN* 2.8 36.4 + - - +
281B ARG* 5.9 0.5 + - - -
285B GLN* 4.7 10.9 + - - +
289B ARG* 5.2 7.7 - - - +
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Residues in contact with LYS 349 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A GLU* 2.6 53.1 + - - +
346A ALA* 3.7 7.4 - - - +
348A GLN* 1.3 77.0 - - + +
350A TRP* 1.3 52.6 + - - +
352A GLN* 3.1 16.4 + - - +
353A LEU* 2.8 49.4 + - + +
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Residues in contact with TRP 350 (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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331A ALA 4.5 0.8 - - - -
332A GLU* 3.3 55.2 - - + +
335A LEU* 3.3 37.3 - - + +
336A GLU* 3.9 20.9 - - + -
346A ALA 2.8 22.4 + - - +
347A LEU* 3.3 42.4 - - + -
349A LYS* 1.3 72.5 - - - +
351A LEU* 1.3 88.4 + - + +
353A LEU* 3.2 10.3 + - - +
354A THR* 2.8 51.7 + - + +
281B ARG* 5.7 0.9 - - + -
284B ASP* 6.0 0.7 - - + -
315C LYS* 6.5 0.4 - - - -
317C ALA* 5.2 10.6 - - + +
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Residues in contact with LEU 351 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A GLU* 6.1 0.7 - - - +
347A LEU* 2.7 23.9 + - + +
348A GLN* 3.9 4.3 - - - +
350A TRP* 1.3 104.2 - - + +
352A GLN* 1.3 56.0 + - - +
354A THR* 2.9 21.1 + - - +
355A HIS* 2.9 23.7 + - + +
277B ALA* 4.0 24.0 - - + +
281B ARG* 3.5 52.0 - - + +
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Residues in contact with GLN 352 (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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348A GLN 2.8 19.7 + - - +
349A LYS* 3.3 17.8 + - - +
351A LEU* 1.3 75.4 - - - +
353A LEU* 1.3 65.8 + - + +
355A HIS* 4.2 3.2 + - - +
356A GLU* 2.8 40.6 + - + +
281B ARG* 5.4 6.2 - - - +
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Residues in contact with LEU 353 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349A LYS* 2.8 33.9 + - + +
350A TRP* 3.7 6.5 - - - +
352A GLN* 1.3 86.4 - - + +
354A THR* 1.3 66.1 + - + +
356A GLU* 3.6 6.2 - - + +
357A VAL* 3.0 31.9 + - + +
318C GLU* 3.7 44.6 - - + +
321C LEU* 4.1 4.7 - - + +
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Residues in contact with THR 354 (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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328A LEU* 4.0 7.4 - - + -
329A ARG* 5.2 1.5 + - - -
332A GLU* 3.8 21.8 + - - +
350A TRP* 2.8 45.7 + - + +
351A LEU* 2.9 26.3 + - - +
353A LEU* 1.3 76.3 - - + +
355A HIS* 1.3 54.3 + - - -
357A VAL* 3.8 1.7 - - - +
358A GLU* 2.8 34.1 + - - +
317C ALA* 5.3 2.5 - - + -
321C LEU* 3.5 26.7 - - + +
365C LYS* 5.3 2.4 + - - -
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Residues in contact with HIS 355 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351A LEU* 2.9 29.7 + - + +
352A GLN* 4.2 2.6 + - - +
354A THR* 1.3 75.2 + - - +
356A GLU* 1.3 63.4 + - - +
358A GLU* 3.9 9.2 - - - -
359A VAL* 2.8 55.3 + - + +
273B LEU* 4.6 5.8 - - + -
274B ASN* 2.9 39.8 + - - -
277B ALA* 3.9 22.0 - - + -
281B ARG* 5.1 8.5 + - - +
365C LYS* 6.0 0.4 - - - +
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Residues in contact with GLU 356 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A GLN* 2.8 33.3 + - + +
353A LEU* 3.6 9.9 - - + +
355A HIS* 1.3 76.7 + - - +
357A VAL* 1.3 62.2 + - + +
359A VAL* 3.7 4.0 - - - +
360A GLN* 2.8 63.4 + - + +
325C ARG* 6.1 0.4 - - - +
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Residues in contact with VAL 357 (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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353A LEU* 3.0 18.0 + - + +
354A THR 4.0 1.3 - - - +
356A GLU* 1.3 80.0 - - + +
358A GLU* 1.3 60.5 + - - +
360A GLN* 3.9 5.4 - - - -
361A TYR* 2.8 34.0 + - + -
321C LEU* 3.3 55.0 - - + +
322C GLU* 3.8 27.4 - - + +
325C ARG* 3.8 15.9 - - + +
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Residues in contact with GLU 358 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
329A ARG* 2.7 38.8 + - - -
354A THR 2.8 19.0 + - - +
355A HIS* 3.6 12.0 - - - +
357A VAL* 1.3 76.9 - - - +
359A VAL* 1.3 62.7 + - - +
361A TYR* 3.2 34.5 + - + +
362A TYR* 3.0 25.1 + - - +
273B LEU* 3.9 33.3 - - + +
277B ALA* 5.8 0.7 - - - +
321C LEU* 5.6 0.2 - - - +
361C TYR* 5.0 2.2 - - - -
365C LYS* 2.7 29.3 + - - +
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Residues in contact with VAL 359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
355A HIS* 2.8 53.5 + - + +
356A GLU* 3.9 4.9 - - - +
358A GLU* 1.3 72.9 - - - +
360A GLN* 1.3 58.3 + - - +
362A TYR* 3.8 17.3 - - + -
363A ASN* 2.8 33.7 + - + +
273B LEU* 4.2 13.2 - - + -
274B ASN* 5.5 2.2 - - + +
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Residues in contact with GLN 360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A GLU* 2.8 52.5 + - + +
357A VAL* 3.1 9.8 + - - +
359A VAL* 1.3 77.6 - - - +
361A TYR* 1.4 64.6 + - - +
363A ASN* 3.1 8.3 + - - +
364A ILE* 2.9 33.5 + - - +
325C ARG* 3.4 41.8 + - - +
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Residues in contact with TYR 361 (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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329A ARG* 5.7 2.2 - - - -
357A VAL* 2.8 33.7 + - + +
358A GLU* 3.2 38.9 + - + +
360A GLN* 1.4 71.8 - - - +
362A TYR* 1.3 86.4 + + + +
364A ILE* 3.3 13.0 + - - +
365A LYS* 3.0 30.5 + - + +
273B LEU* 5.6 0.5 - - - +
321C LEU* 5.8 0.4 - - + -
324C VAL* 6.3 2.2 - - + -
325C ARG* 4.0 15.4 - - + +
329C ARG* 3.1 42.4 - - - +
358C GLU* 4.7 3.8 - - - -
361C TYR* 2.6 48.5 + + - -
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Residues in contact with TYR 362 (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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358A GLU 3.0 18.1 + - - +
359A VAL* 3.4 20.9 - - + +
361A TYR* 1.3 95.0 - + + +
363A ASN* 1.3 62.0 + - + +
365A LYS* 3.4 5.0 - - - +
366A LYS* 2.9 63.1 + - + +
0B SER* 3.9 25.1 + - - -
273B LEU* 4.7 25.4 - - + -
272D GLU* 3.5 27.6 + - + +
273D LEU* 5.0 12.6 - - + -
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Residues in contact with ASN 363 (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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359A VAL* 2.8 26.7 + - + +
360A GLN* 3.6 8.8 + - - +
362A TYR* 1.3 81.4 - - + +
364A ILE* 1.3 54.9 + - + +
366A LYS* 3.1 9.5 + - - +
367A GLN* 2.7 39.0 + - - +
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Residues in contact with ILE 364 (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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360A GLN* 2.9 31.4 + - + +
361A TYR* 3.5 8.7 - - - +
363A ASN* 1.3 79.7 - - + +
365A LYS* 1.3 58.3 - - - +
367A GLN* 3.3 6.1 + - - +
368A ASN* 2.8 30.1 + - + +
325C ARG* 3.6 37.9 - - + +
326C GLU* 6.2 0.4 - - - -
329C ARG* 4.0 22.7 - - + -
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Residues in contact with LYS 365 (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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361A TYR* 3.0 21.4 + - + +
362A TYR* 3.4 10.1 - - + +
364A ILE* 1.3 75.7 - - - +
366A LYS* 1.3 68.5 + - - +
368A ASN* 4.1 8.3 - - + +
369A ALA* 2.7 36.0 + - - +
329C ARG* 3.3 24.9 - - + +
332C GLU* 2.9 31.5 + - - +
354C THR* 5.3 3.4 - - - -
355C HIS* 6.1 0.2 - - - +
358C GLU* 2.7 38.5 + - - +
273D LEU* 5.8 2.7 - - + +
277D ALA* 6.0 3.0 - - - +
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Residues in contact with LYS 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
362A TYR* 2.9 50.2 + - + +
363A ASN* 3.4 15.0 - - - +
365A LYS* 1.3 92.4 + - - +
367A GLN* 1.3 64.0 + - - +
369A ALA* 3.7 3.5 - - - +
370A GLU* 2.9 36.5 + - + +
272D GLU* 2.6 50.1 + - - +
273D LEU* 4.1 9.0 - - - +
276D LEU* 3.5 24.0 - - + +
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Residues in contact with GLN 367 (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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363A ASN* 2.7 24.9 + - - +
364A ILE* 3.5 6.7 - - - +
366A LYS* 1.3 74.0 - - - +
368A ASN* 1.3 63.2 + - - +
370A GLU* 3.4 12.7 + - - +
371A LYS* 3.0 50.4 + - + +
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Residues in contact with ASN 368 (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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364A ILE* 2.8 24.1 + - + +
365A LYS* 3.8 9.0 - - - +
367A GLN* 1.3 72.2 - - - +
369A ALA* 1.3 54.9 + - - +
371A LYS* 3.1 14.8 + - - +
372A GLN* 2.7 39.6 + - - +
332C GLU* 5.5 2.2 - - - +
333C LYS* 3.8 33.6 - - - +
336C GLU* 2.9 39.7 + - - +
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Residues in contact with ALA 369 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A LYS* 2.7 25.6 + - + +
366A LYS* 3.7 8.3 - - - +
368A ASN* 1.3 73.9 - - - +
370A GLU* 1.3 52.0 + - - +
372A GLN* 3.3 8.2 + - - +
373A LEU* 2.7 40.2 + - - +
276D LEU* 4.7 20.2 - - + +
280D ALA* 4.2 18.0 - - + +
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Residues in contact with GLU 370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366A LYS* 2.9 26.4 + - - +
367A GLN* 3.9 13.0 + - - +
369A ALA* 1.3 70.9 - - - +
371A LYS* 1.3 65.3 + - - +
373A LEU* 3.3 14.3 + - + +
374A LEU* 3.0 23.4 + - - +
276D LEU* 4.8 16.6 - - + +
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Residues in contact with LYS 371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
367A GLN* 3.0 49.2 + - + +
368A ASN* 3.3 14.8 + - - +
370A GLU* 1.3 72.8 - - - +
372A GLN* 1.3 54.3 + - + +
374A LEU* 3.0 7.9 + - - +
375A VAL* 2.7 48.5 + - + +
333C LYS* 5.0 14.5 - - - +
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Residues in contact with GLN 372 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
368A ASN* 2.7 27.6 + - - +
369A ALA* 3.4 8.5 - - - +
371A LYS* 1.3 72.7 - - + +
373A LEU* 1.3 54.7 + - - +
375A VAL* 4.4 13.5 - - - +
376A ALA* 2.7 40.2 + - + +
336C GLU* 3.1 42.3 + - - +
280D ALA* 4.9 11.0 - - + +
283D GLN* 5.3 1.6 - - - -
284D ASP* 2.7 40.7 + - - +
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Residues in contact with LEU 373 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369A ALA* 2.7 29.3 + - + +
370A GLU* 3.4 17.0 - - + +
371A LYS 3.2 0.2 - - - -
372A GLN* 1.3 71.4 - - - +
374A LEU* 1.3 57.2 + - - +
377A LYS* 2.9 31.8 + - - +
276D LEU* 4.1 25.6 - - + -
279D PHE* 3.7 21.8 - - + +
280D ALA* 3.7 27.1 - - + -
283D GLN* 3.9 17.9 + - + +
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Residues in contact with LEU 374 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A GLU 3.0 10.7 + - - +
371A LYS* 3.0 9.4 + - - +
373A LEU* 1.3 74.5 - - - +
375A VAL* 1.3 67.5 + - + +
377A LYS* 3.2 22.0 + - - +
378A GLU* 3.0 39.9 + - + +
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Residues in contact with VAL 375 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A LYS* 2.7 36.3 + - + +
372A GLN* 4.1 13.9 - - - +
374A LEU* 1.3 74.7 - - + +
376A ALA* 1.3 60.6 + - - +
378A GLU* 3.3 7.8 + - - +
379A GLY* 2.9 25.1 + - - -
287D ASP* 4.1 3.7 - - - +
288D HIS* 6.5 0.7 - - + -
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Residues in contact with ALA 376 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372A GLN* 2.7 27.5 + - - +
375A VAL* 1.3 73.1 - - - +
377A LYS* 1.3 60.1 + - - +
380A ALA* 2.8 33.4 + - - +
283D GLN* 3.3 34.8 - - + +
284D ASP* 4.0 7.2 - - - +
287D ASP* 3.9 17.3 - - + +
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Residues in contact with LYS 377 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373A LEU 2.9 23.3 + - - +
374A LEU* 3.4 20.9 - - - +
375A VAL 3.2 0.2 - - - -
376A ALA* 1.3 77.5 - - - +
378A GLU* 1.3 84.4 + - - +
380A ALA* 3.8 1.6 - - - +
381A GLU* 2.7 54.4 + - + +
385A LYS* 5.7 0.5 - - - +
283D GLN* 3.5 17.0 - - - +
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Residues in contact with GLU 378 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A LEU* 3.0 27.0 + - + +
375A VAL* 3.5 9.0 - - - +
377A LYS* 1.3 110.1 + - - +
379A GLY* 1.3 65.3 + - - +
381A GLU* 3.1 10.8 - - - +
382A LYS* 2.7 55.2 + - - +
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Residues in contact with GLY 379 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
375A VAL 2.9 11.8 + - - -
378A GLU* 1.3 76.4 - - - +
380A ALA* 1.3 52.3 + - - +
382A LYS* 3.0 5.7 + - - +
383A ILE* 2.7 43.8 + - - +
287D ASP* 3.2 22.4 - - - -
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Residues in contact with ALA 380 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376A ALA 2.8 20.7 + - - +
377A LYS* 3.8 2.7 - - - +
379A GLY* 1.3 75.0 - - - +
381A GLU* 1.3 58.5 + - - +
383A ILE* 4.5 4.0 - - - +
384A LYS 2.9 14.7 + - - +
385A LYS* 2.9 39.4 + - + -
283D GLN* 4.3 4.9 - - - +
286D LEU* 3.8 36.1 - - + +
287D ASP* 3.9 2.3 + - - +
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Residues in contact with GLU 381 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
377A LYS* 2.7 58.6 + - + +
378A GLU* 3.1 16.8 - - - +
380A ALA* 1.3 77.1 - - - +
382A LYS* 1.3 86.5 + - + +
383A ILE 4.9 0.2 - - - -
384A LYS* 4.6 2.2 + - - -
385A LYS* 4.3 30.1 + - + +
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Residues in contact with LYS 382 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
378A GLU* 2.7 58.5 + - - +
379A GLY* 3.6 4.3 - - - +
381A GLU* 1.3 105.6 + - + +
383A ILE* 1.3 66.8 + - + +
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Residues in contact with ILE 383 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379A GLY* 2.7 27.9 + - - +
380A ALA* 4.2 1.6 - - - +
381A GLU 4.9 0.2 - - - -
382A LYS* 1.3 77.2 - - + +
384A LYS* 1.3 86.1 + - + +
286D LEU 5.2 1.1 - - - +
287D ASP* 3.6 41.1 - - - +
292D HIS* 5.7 9.0 - - + +
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Residues in contact with LYS 384 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380A ALA 2.9 9.4 + - - +
381A GLU 5.2 1.8 - - - -
382A LYS 3.7 0.2 - - - -
383A ILE* 1.3 94.6 + - + +
385A LYS* 1.3 71.1 + - - +
386A LYS* 3.6 11.5 + - + +
286D LEU 4.2 10.0 - - - +
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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