Contacts of the helix formed by residues 358 - 379 (chain A) in PDB entry 4ASQ
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 358 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A LYS* 6.3 2.2 - - - +
286A SER* 3.4 16.6 - - - +
289A MET* 3.5 16.2 - - - +
290A GLU* 5.9 0.9 - - - +
356A ARG* 3.1 26.2 + - + +
357A VAL* 1.3 82.0 - - - +
359A GLN* 1.3 64.4 + - - +
360A ASP* 3.7 7.1 + - - +
361A GLN* 3.1 28.1 + - - +
362A LEU 3.1 17.2 + - - -
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Residues in contact with GLN 359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283A VAL* 3.6 21.8 + - - +
284A ASP* 3.3 15.3 - - - +
285A VAL* 2.9 49.6 - - + +
286A SER* 2.9 16.4 + - - +
289A MET* 3.7 9.9 - - - -
358A THR* 1.3 69.5 - - - +
360A ASP* 1.3 66.0 + - - +
362A LEU* 3.1 20.6 + - + +
363A PHE* 3.2 39.8 + - + -
406A SER* 5.5 1.4 - - - +
411A LEU* 5.0 4.3 - - + +
433A LEU* 4.7 8.5 - - - +
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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
----------------------------------------------------------
268A SER* 5.0 5.3 + - - +
269A GLU* 4.4 17.5 - - - +
356A ARG* 5.6 2.4 + - - -
358A THR* 3.4 7.4 + - - +
359A GLN* 1.3 78.9 - - - +
361A GLN* 1.3 62.1 + - + +
363A PHE* 3.2 22.1 + - - +
364A THR* 3.0 32.9 + - - -
437A ASP* 4.7 8.8 - - - +
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Residues in contact with GLN 361 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A MET* 3.7 4.5 - - + -
353A GLN* 3.2 20.4 + - - +
354A CYS 3.8 5.1 - - - +
355A THR* 3.2 4.7 - - - -
356A ARG* 3.0 75.8 + - - +
358A THR* 3.1 21.8 + - - +
360A ASP* 1.3 77.6 + - + +
362A LEU* 1.3 60.8 + - - +
364A THR* 3.2 22.0 + - - +
365A VAL* 2.9 33.1 + - - +
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Residues in contact with LEU 362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285A VAL* 5.2 3.1 - - + -
289A MET* 4.2 11.4 - - + -
294A TYR* 5.1 0.2 - - + -
299A MET* 3.6 35.1 - - + +
302A MET* 4.5 20.0 - - + -
358A THR 3.1 12.1 + - - +
359A GLN* 3.1 12.2 + - - +
361A GLN* 1.3 76.5 - - - +
363A PHE* 1.3 61.2 + - + +
365A VAL* 3.6 2.9 + - + +
366A HIS* 2.9 44.8 + - + +
405A VAL* 3.9 25.8 - - + -
411A LEU* 4.8 6.5 - - + -
414A ILE* 4.9 1.1 - - + -
416A LEU* 4.3 23.6 - - + -
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Residues in contact with PHE 363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359A GLN* 3.2 45.7 + - + -
360A ASP* 3.2 21.6 + - - +
362A LEU* 1.3 78.2 - - + +
364A THR* 1.3 58.0 + - - +
366A HIS* 3.2 1.1 + - - -
367A HIS* 2.8 28.4 + - - +
402A SER* 3.0 36.9 + - - +
405A VAL* 3.9 15.3 - - + -
406A SER* 3.5 42.2 - - - -
411A LEU* 5.8 1.6 - - + -
437A ASP* 5.1 10.8 - - - -
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Residues in contact with THR 364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A ALA* 4.2 4.9 - - + -
353A GLN* 3.6 22.9 - - - +
360A ASP* 3.0 19.2 + - - -
361A GLN* 3.2 23.2 + - - +
363A PHE* 1.3 74.0 - - - +
365A VAL* 1.3 65.1 + - - +
367A HIS* 3.2 8.3 + - + +
368A GLU* 3.0 23.8 + - + +
2P PRO* 3.6 34.9 - - + +
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Residues in contact with VAL 365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A MET* 3.8 33.4 - - + +
300A PHE* 3.7 40.0 - - + -
353A GLN* 3.6 21.1 - - - +
355A THR* 4.0 9.9 - - + -
361A GLN 2.9 20.3 + - - +
362A LEU* 3.7 7.2 - - - +
364A THR* 1.3 75.1 - - - +
366A HIS* 1.3 59.9 + - + +
368A GLU* 3.4 1.9 + - - +
369A LEU* 3.0 42.1 + - + +
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Residues in contact with HIS 366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299A MET 5.0 0.2 + - - -
302A MET* 4.4 4.3 - - - +
303A GLY* 3.6 32.1 + - - -
306A PHE* 3.9 18.6 - + + +
307A PHE* 4.3 4.8 - - - -
362A LEU* 2.9 41.6 + - + +
363A PHE* 3.2 2.3 + - - +
365A VAL* 1.3 78.2 - - + +
367A HIS* 1.3 65.3 + - - +
369A LEU* 3.4 6.8 + - - +
370A GLY 3.0 17.5 + - - -
398A GLY* 3.2 15.3 - - - +
401A LEU* 4.3 14.2 - - + +
402A SER* 3.4 19.5 - - - +
405A VAL* 3.6 32.6 - - + +
410A HIS* 6.0 0.2 - - - -
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Residues in contact with HIS 367 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A PHE 2.8 13.6 + - - +
364A THR* 3.2 13.2 + - - +
366A HIS* 1.3 76.3 - - - +
368A GLU* 1.3 80.8 + - + +
370A GLY* 3.1 12.5 + - - -
371A HIS* 3.2 11.9 + - - -
394A HIS 5.4 0.7 - - - +
395A GLU* 3.2 29.7 + - + +
398A GLY* 3.7 12.2 + - - -
399A ASP* 2.8 26.7 + - - +
402A SER* 4.1 0.8 + - - -
507A TYR* 4.6 1.6 - + - -
1615A ZN 2.1 36.3 - - - -
1P ARG 3.0 9.5 + - - -
2P PRO* 4.0 6.5 - - + -
3P PRO* 4.4 13.4 - - + +
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Residues in contact with GLU 368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A ALA* 4.0 17.3 - - + -
339A SER 4.0 11.7 - - - +
340A ALA* 3.0 18.7 + - - +
351A ILE* 3.6 21.7 - - + +
353A GLN* 4.1 8.5 - - - +
364A THR* 3.0 19.3 + - + +
365A VAL 3.9 2.5 - - - +
367A HIS* 1.3 84.4 - - - +
369A LEU* 1.3 64.0 + - - +
371A HIS* 3.2 15.7 + - - +
372A ILE* 3.2 15.4 + - - +
1624A FLC 3.0 22.2 - - - +
1P ARG* 3.1 25.1 - - - -
2P PRO* 3.1 9.2 - - - +
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Residues in contact with LEU 369 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A PHE* 3.9 9.4 - - + +
303A GLY* 3.5 38.4 - - - -
304A ASP* 3.8 3.4 - - - +
307A PHE* 3.6 19.8 - - + -
315A LEU* 3.7 34.3 - - + +
319A PHE* 3.8 9.0 - - + -
351A ILE* 3.7 19.7 - - + -
365A VAL* 3.0 34.0 + - + +
366A HIS* 3.9 2.7 - - - +
367A HIS 3.3 0.2 - - - -
368A GLU* 1.3 72.4 - - - +
370A GLY* 1.3 59.9 + - - +
372A ILE* 3.4 4.4 + - + +
373A GLN* 2.9 30.0 + - - +
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Residues in contact with GLY 370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307A PHE* 3.7 12.3 - - - -
366A HIS 3.0 9.9 + - - -
367A HIS 3.1 7.3 + - - -
369A LEU* 1.3 75.1 - - - +
371A HIS* 1.3 62.4 + - - +
373A GLN* 3.5 2.8 + - - +
374A TYR* 3.1 22.0 + - - +
394A HIS 4.9 0.9 - - - -
397A VAL* 3.7 15.6 - - - +
398A GLY* 3.6 20.0 - - - -
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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
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340A ALA* 3.6 12.8 - - + -
367A HIS* 3.2 20.1 + - - -
368A GLU* 3.2 15.1 + - - +
370A GLY* 1.3 74.1 - - - +
372A ILE* 1.3 64.7 + - - +
374A TYR* 3.1 5.9 + - - +
375A PHE* 3.0 30.8 + - + -
394A HIS* 2.8 53.6 + - + +
395A GLU* 3.2 18.4 - - - -
1615A ZN 2.1 36.2 - - - -
1624A FLC 3.2 24.7 + - + -
1P ARG 3.2 1.3 + - - -
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Residues in contact with ILE 372 (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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315A LEU* 3.5 28.9 - - + -
319A PHE* 4.1 4.7 - - + -
340A ALA* 3.9 9.6 - - + -
349A VAL* 3.7 24.0 - - + -
350A ARG 3.4 41.3 - - - +
351A ILE* 3.6 17.5 - - + -
368A GLU 3.2 12.9 + - - +
369A LEU* 3.7 9.0 - - - +
370A GLY 3.4 0.2 - - - -
371A HIS* 1.3 75.9 - - - +
373A GLN* 1.3 62.6 + - - +
375A PHE* 3.1 13.9 + - + +
376A LEU* 3.0 26.2 + - + +
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Residues in contact with GLN 373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
307A PHE* 3.7 32.7 - - + -
312A LEU* 3.5 13.5 - - + +
313A THR* 2.9 47.3 + - - +
315A LEU* 6.0 1.0 - - - +
369A LEU 2.9 17.2 + - - +
370A GLY 3.7 4.3 - - - +
371A HIS 3.3 0.2 - - - -
372A ILE* 1.3 75.1 - - - +
374A TYR* 1.3 57.1 + - - +
376A LEU* 3.2 8.7 + - - +
377A GLN* 2.8 69.4 + - + +
556A LEU* 4.2 12.3 - - + -
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Residues in contact with TYR 374 (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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370A GLY 3.1 8.1 + - - +
371A HIS 3.1 10.6 + - - +
373A GLN* 1.3 78.7 - - - +
375A PHE* 1.3 62.3 + - - +
377A GLN* 3.2 3.7 + - - +
378A TYR* 3.1 57.1 + + - -
388A GLY* 3.8 11.7 - - - -
389A ALA* 3.2 24.9 + - - +
393A PHE* 3.8 16.9 - - + +
394A HIS* 3.5 50.5 - + + -
397A VAL* 3.7 10.8 - - + -
555A MET* 4.8 3.8 + - - +
556A LEU* 3.4 51.7 - - + +
559A GLY* 4.5 5.0 + - - -
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Residues in contact with PHE 375 (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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340A ALA* 3.8 11.2 - - + -
341A TRP 3.6 33.0 - - - -
342A ASP* 3.6 33.1 - - + +
349A VAL* 3.8 14.8 - - + -
371A HIS* 3.0 18.3 + - + -
372A ILE* 3.3 17.0 - - + +
374A TYR* 1.3 77.0 - - - +
376A LEU* 1.3 61.3 + - - +
378A TYR* 3.2 26.3 - - - -
379A GLN* 3.1 27.9 + - - +
386A ARG* 5.2 0.2 + - - -
394A HIS* 3.4 23.6 - + - -
1624A FLC 3.9 35.0 - - + -
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Residues in contact with LEU 376 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A THR* 4.2 30.6 + - + +
314A LYS 4.0 12.8 - - - +
315A LEU* 4.8 2.5 - - + -
316A PRO* 3.9 24.0 - - + -
347A ASP* 3.6 26.0 - - - +
349A VAL* 4.0 22.2 - - + -
372A ILE* 3.0 29.6 + - + +
373A GLN* 3.7 9.0 - - - +
375A PHE* 1.3 76.9 - - - +
377A GLN* 1.3 64.7 + - - +
379A GLN* 3.4 31.7 + - - +
380A HIS* 5.3 0.3 - - - -
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Residues in contact with GLN 377 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A LEU* 3.8 10.5 - - - +
313A THR* 3.3 12.4 + - - -
373A GLN* 2.8 48.7 + - - +
374A TYR 3.2 2.9 + - - +
376A LEU* 1.3 77.0 - - - +
378A TYR* 1.3 58.2 + - - +
379A GLN 3.6 0.2 - - - -
380A HIS* 3.2 22.1 + - - -
553A HIS* 3.0 50.1 + - - +
556A LEU* 3.6 33.9 - - + -
557A SER* 3.3 15.0 - - - -
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Residues in contact with TYR 378 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342A ASP* 3.8 11.6 + - - -
374A TYR* 3.1 46.1 + + - -
375A PHE* 3.2 30.9 - + - -
377A GLN* 1.3 75.8 - - - +
379A GLN* 1.3 56.9 + - - +
380A HIS* 3.1 10.3 - - - -
381A GLN* 3.0 34.2 + - + +
386A ARG* 3.4 30.3 + - + +
387A THR* 3.4 29.5 - - - -
394A HIS* 2.8 23.5 + - - -
556A LEU 3.7 8.3 - - - +
557A SER 4.1 0.2 - - - +
559A GLY* 3.6 24.9 - - - +
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Residues in contact with GLN 379 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345A LEU 4.2 2.8 - - - +
346A THR* 3.9 17.3 - - + +
347A ASP* 3.0 46.1 + - - +
349A VAL* 5.4 2.6 - - - +
375A PHE 3.1 13.6 + - - +
376A LEU* 3.4 29.0 + - - +
377A GLN 3.6 0.8 - - - -
378A TYR* 1.3 76.4 - - - +
380A HIS* 1.3 62.5 + - + +
381A GLN 3.3 1.3 - - - +
386A ARG* 3.4 43.1 + - - +
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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