Contacts of the helix formed by residues 375 - 398 (chain C) in PDB entry 1OHV
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 ASP 375 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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371C ILE 3.3 4.8 + - - -
372C LYS 3.2 14.2 + - - +
373C ARG 3.2 2.9 - - - +
374C GLU* 1.3 80.6 - - - +
376C LEU* 1.3 62.8 + - - +
377C LEU* 3.3 4.2 + - - +
378C SER* 3.4 26.6 + - - -
379C ASN* 3.2 17.7 + - - +
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Residues in contact with LEU 376 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77C ILE* 4.0 17.0 - - + -
370C ILE* 4.0 11.9 - - + -
371C ILE* 2.9 33.8 + - + +
374C GLU* 3.6 27.1 - - + +
375C ASP* 1.3 73.4 - - - +
377C LEU* 1.3 60.7 + - - +
379C ASN* 3.6 7.5 + - + +
380C ALA* 2.9 28.4 + - - +
450C LEU* 3.6 46.9 - - + +
451C VAL* 4.5 6.1 - - + -
453C ARG* 4.1 23.3 - - - +
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Residues in contact with LEU 377 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304C GLY 4.8 0.2 - - - +
305C GLY* 3.4 35.2 - - - +
308C GLY* 3.5 25.7 - - - +
309C LYS* 4.0 3.1 - - - -
310C PHE* 3.8 36.1 - - + +
371C ILE* 4.1 23.6 - - + +
372C LYS* 6.3 2.5 - - + -
375C ASP* 3.3 2.3 - - - +
376C LEU* 1.3 73.9 - - - +
378C SER* 1.3 67.2 + - - +
380C ALA* 3.2 9.5 + - - +
381C ALA* 3.2 9.2 + - - +
450C LEU* 5.7 0.9 - - + -
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Residues in contact with SER 378 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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308C GLY 5.1 1.1 - - - -
375C ASP* 3.4 31.7 + - - -
377C LEU* 1.3 78.3 - - - +
379C ASN* 1.3 63.6 + - - +
381C ALA* 3.2 9.1 + - - +
382C HIS* 3.0 23.8 + - - +
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Residues in contact with ASN 379 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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374C GLU 5.3 0.2 - - - +
375C ASP* 3.2 13.2 + - - +
376C LEU* 3.6 11.9 - - + +
377C LEU 3.2 0.8 - - - -
378C SER* 1.3 80.7 - - - +
380C ALA* 1.3 54.1 + - - +
382C HIS* 4.4 12.3 - - - -
383C ALA* 2.7 34.7 + - - +
450C LEU 3.8 15.4 + - - -
452C PHE 2.9 28.3 + - - +
453C ARG* 3.6 37.5 + - - +
454C ASP 5.2 0.3 + - - -
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Residues in contact with ALA 380 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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305C GLY 3.5 25.8 - - - +
306C SER* 3.7 16.2 - - - +
308C GLY 4.3 0.4 - - - +
376C LEU 2.9 16.7 + - - +
377C LEU 3.2 3.3 + - - +
379C ASN* 1.3 79.8 - - - +
381C ALA* 1.3 56.8 + - - +
383C ALA* 4.7 0.2 - - - -
384C GLY* 2.8 28.4 + - - -
409C GLY* 4.4 2.0 - - - -
410C THR* 3.3 18.4 + - + +
450C LEU* 4.5 7.9 - - + -
452C PHE 5.5 0.2 - - - -
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Residues in contact with ALA 381 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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307C THR 5.3 0.7 - - - +
308C GLY* 4.2 12.3 - - - +
377C LEU 3.2 9.5 + - - +
378C SER* 3.5 12.3 - - - +
379C ASN 3.2 0.2 - - - -
380C ALA* 1.3 79.6 - - - +
382C HIS* 1.3 56.9 + - - +
384C GLY 3.8 0.5 - - - -
385C LYS* 3.0 40.4 + - - +
409C GLY* 4.3 12.7 - - - -
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Residues in contact with HIS 382 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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378C SER 3.0 16.0 + - - +
379C ASN* 3.7 13.7 - - - +
381C ALA* 1.3 74.7 - - - +
383C ALA* 1.3 67.7 + - - +
385C LYS* 3.1 15.0 + - - +
386C VAL* 3.0 35.8 + - + +
454C ASP* 2.8 34.8 + - + +
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Residues in contact with ALA 383 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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379C ASN* 2.7 23.2 + - - +
380C ALA 4.3 1.8 - - - +
382C HIS* 1.3 75.3 - - + +
384C GLY* 1.3 55.9 + - - +
386C VAL* 3.3 4.6 + - - +
387C LEU* 2.9 27.7 + - - +
410C THR* 4.3 3.1 - - + -
452C PHE* 3.5 36.6 - - + +
453C ARG* 3.7 18.6 - - - -
454C ASP* 3.9 10.1 - - - +
457C ALA* 4.2 1.2 - - - +
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Residues in contact with GLY 384 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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380C ALA 2.8 16.7 + - - -
381C ALA 3.8 0.4 - - - -
383C ALA* 1.3 76.5 - - - +
385C LYS* 1.3 58.8 + - - +
387C LEU* 3.3 4.8 + - - +
388C LEU* 2.9 30.8 + - - +
409C GLY* 3.2 29.4 - - - +
410C THR* 3.6 9.1 - - - +
412C CYS* 4.1 0.7 - - - -
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Residues in contact with LYS 385 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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381C ALA* 3.0 25.5 + - - +
382C HIS* 3.1 15.8 + - - +
384C GLY* 1.3 74.9 - - - +
386C VAL* 1.3 60.8 + - + +
388C LEU* 3.3 7.7 + - + +
389C THR* 2.9 38.6 + - - +
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Residues in contact with VAL 386 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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382C HIS* 3.0 31.3 + - + +
383C ALA 3.6 7.2 - - - +
385C LYS* 1.3 75.6 - - + +
387C LEU* 1.3 62.5 + - - +
389C THR* 3.8 5.8 - - - -
390C GLY 3.1 17.8 + - - -
454C ASP* 3.7 22.0 - - + +
457C ALA* 3.9 15.9 - - + -
458C HIS* 3.4 37.9 - - + +
461C LEU* 3.9 4.4 - - + +
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Residues in contact with LEU 387 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C LEU* 5.7 0.2 - - + -
383C ALA 2.9 18.0 + - - +
384C GLY* 3.5 5.4 - - - +
385C LYS 3.2 0.2 - - - -
386C VAL* 1.3 75.9 - - - +
388C LEU* 1.3 57.3 + - - +
390C GLY* 3.3 2.9 + - - -
391C LEU* 3.0 42.5 + - + +
410C THR* 4.2 11.2 - - - +
412C CYS* 4.0 19.5 - - + -
446C PHE* 4.0 29.6 - - + -
448C PRO* 4.9 1.3 - - + -
452C PHE* 4.5 16.2 - - + -
457C ALA* 4.0 17.7 - - + +
460C PHE* 4.0 31.6 - - + -
461C LEU* 4.2 4.9 - - + +
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Residues in contact with LEU 388 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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384C GLY 2.9 17.9 + - - +
385C LYS* 3.8 7.2 - - + +
387C LEU* 1.3 76.2 - - - +
389C THR* 1.3 58.5 + - - +
391C LEU* 3.2 7.0 + - + +
392C LEU* 2.9 42.6 + - + +
405C VAL* 3.7 19.1 - - + -
406C ARG* 3.6 31.6 - - - +
407C GLY 3.8 16.8 - - - +
409C GLY 5.5 0.2 - - - +
412C CYS* 4.0 13.5 - - + -
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Residues in contact with THR 389 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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385C LYS* 2.9 24.7 + - - +
386C VAL* 3.8 6.7 - - - -
387C LEU 3.3 0.2 - - - -
388C LEU* 1.3 75.9 - - - +
390C GLY* 1.3 63.1 + - - +
392C LEU* 3.2 14.5 + - - +
393C ASP* 3.0 22.1 + - + +
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Residues in contact with GLY 390 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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386C VAL 3.1 8.3 + - - -
389C THR* 1.3 80.6 - - - +
391C LEU* 1.3 56.7 + - - +
393C ASP* 3.2 8.3 + - - +
394C LEU* 3.0 32.2 + - - +
461C LEU* 3.6 30.3 - - - -
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Residues in contact with LEU 391 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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387C LEU* 3.0 33.3 + - + +
388C LEU* 3.2 9.4 + - + +
390C GLY* 1.3 75.9 - - - +
392C LEU* 1.3 57.3 + - - +
394C LEU* 3.3 11.2 + - + +
395C GLN* 2.9 28.4 + - - +
402C ILE* 4.6 2.0 - - + +
405C VAL* 3.5 23.4 - - + +
412C CYS* 4.2 14.6 - - + -
413C SER 4.8 3.1 - - - +
414C PHE* 3.9 30.7 - - + -
446C PHE* 3.8 27.4 - - + -
460C PHE* 4.1 13.9 - - + -
461C LEU* 4.3 3.1 - - + -
464C PHE* 5.5 0.7 - - + -
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Residues in contact with LEU 392 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226C PRO* 6.6 0.2 - - + -
388C LEU* 2.9 33.6 + - + +
389C THR* 3.2 13.2 + - + +
391C LEU* 1.3 76.8 - - - +
393C ASP* 1.3 55.4 - - - +
395C GLN* 3.3 24.8 + - - +
396C ALA* 3.0 26.2 + - - +
405C VAL* 3.7 25.4 - - + +
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Residues in contact with ASP 393 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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389C THR* 3.0 13.5 + - + +
390C GLY* 3.2 11.8 + - - +
392C LEU* 1.3 76.3 - - - +
394C LEU* 1.3 64.8 + - - +
396C ALA* 3.2 9.3 + - - +
397C ARG* 3.0 28.6 + - - +
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Residues in contact with LEU 394 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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390C GLY 3.0 15.6 + - - +
391C LEU* 3.7 12.1 - - + +
393C ASP* 1.3 80.4 - - - +
395C GLN* 1.3 61.9 + - - +
397C ARG* 4.4 4.5 - - + +
398C TYR* 2.8 41.6 + - + +
402C ILE* 4.3 7.0 - - + +
461C LEU* 3.8 34.1 - - + +
464C PHE* 4.1 26.7 - - + -
465C SER* 3.9 31.2 - - - +
468C LEU* 4.3 13.2 - - + -
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Residues in contact with GLN 395 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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225C TYR* 6.3 0.8 - - - +
226C PRO* 5.7 7.3 - - - +
391C LEU 2.9 14.3 + - - +
392C LEU* 3.3 32.1 + - - +
394C LEU* 1.3 77.4 - - - +
396C ALA* 1.3 61.1 + - - +
398C TYR 3.5 0.2 - - - -
399C PRO* 3.2 26.3 - - + +
402C ILE* 3.7 25.5 - - + +
403C SER* 3.1 4.4 - - - -
404C ARG* 2.9 30.2 + - - -
405C VAL* 2.9 20.0 + - + +
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Residues in contact with ALA 396 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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392C LEU 3.0 13.6 + - - +
393C ASP* 3.4 14.6 - - - +
395C GLN* 1.3 78.3 - - - +
397C ARG* 1.3 58.6 + - - +
399C PRO* 3.6 9.6 - - - +
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Residues in contact with ARG 397 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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393C ASP* 3.0 18.3 + - - +
394C LEU* 3.8 3.6 - - + +
395C GLN 3.2 0.2 - - - -
396C ALA* 1.3 77.8 - - - +
398C TYR* 1.3 88.9 + - + +
399C PRO* 3.3 7.5 - - - +
400C GLN* 4.2 2.8 + - - +
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Residues in contact with TYR 398 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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394C LEU* 2.8 26.2 + - + +
395C GLN 3.5 3.6 - - - -
397C ARG* 1.3 100.2 - - + +
399C PRO* 1.3 59.1 - - - +
400C GLN* 3.1 28.7 - - - +
401C PHE* 3.0 15.3 + + + -
402C ILE* 2.8 27.1 + - + +
465C SER* 4.0 9.5 + - - -
468C LEU* 3.6 54.1 - - + -
469C ALA* 3.6 23.1 - - - +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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