Contacts of the helix formed by residues 369 - 383 (chain C) in PDB entry 2O1S
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 369 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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156C THR* 5.0 2.9 - - + +
344C PRO* 4.1 4.2 - - - +
366C VAL* 3.3 31.3 - - + +
367C ALA 2.7 8.5 + - - -
368C ILE* 1.3 72.6 - - - +
370C GLU* 1.3 66.4 + - - +
371C GLN 3.2 2.8 + - - -
373C ALA* 3.1 18.2 + - - +
162D GLU* 3.1 41.7 - - + +
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Residues in contact with GLU 370 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
344C PRO* 3.9 22.9 - - + +
368C ILE* 4.0 4.0 - - - +
369C ALA* 1.3 78.1 + - - +
371C GLN* 1.3 64.2 + - - +
373C ALA* 3.3 10.7 + - - +
374C VAL* 3.4 9.7 + - - +
391C ILE* 3.7 19.4 - - + +
395C PHE* 3.3 34.5 - - + +
398C ARG* 3.7 17.6 - - + +
399C ALA* 3.3 18.2 - - + +
3002C TPP 2.7 47.8 + - - +
162D GLU* 4.5 0.6 + - - -
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Residues in contact with GLN 371 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
369C ALA 3.2 0.8 - - - -
370C GLU* 1.3 79.6 - - - +
372C HIS* 1.3 63.0 + - - +
374C VAL 3.4 6.8 + - - -
375C THR* 3.4 4.0 + - - -
398C ARG* 3.0 32.8 - - + +
399C ALA* 4.0 0.4 - - - -
402C GLN* 3.3 42.0 + - - +
159D MSE 3.4 34.9 - - + +
162D GLU* 3.5 12.9 + - - +
371D GLN* 3.3 30.9 - - - +
398D ARG* 3.2 27.4 - - - +
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Residues in contact with HIS 372 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366C VAL* 3.3 25.4 - - + +
369C ALA 3.5 2.6 + - - +
371C GLN* 1.3 75.5 - - - +
373C ALA* 1.3 57.4 + - - +
375C THR 4.6 0.2 - - - +
376C PHE* 2.8 39.4 + - + +
128D SER* 2.9 38.3 - - - +
131D ILE* 3.7 19.7 - - + +
159D MSE 4.4 3.3 - - - +
162D GLU* 3.0 31.7 + - + +
163D ALA* 3.6 20.9 - - + +
166D HIS* 2.8 44.0 + + + +
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Residues in contact with ALA 373 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342C ILE* 4.0 19.4 - - + +
344C PRO* 4.0 21.1 - - + -
366C VAL* 4.3 15.5 - - + -
369C ALA 3.1 18.8 + - - +
370C GLU 3.5 7.9 - - - +
371C GLN 3.1 0.4 - - - -
372C HIS* 1.3 78.1 + - - +
374C VAL* 1.3 61.0 + - - +
376C PHE* 3.6 2.6 - - - +
377C ALA* 3.2 20.3 + - - +
389C VAL* 3.9 13.2 - - + +
391C ILE* 5.8 0.2 - - + -
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Residues in contact with VAL 374 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370C GLU 3.7 12.1 - - - +
371C GLN 3.4 2.3 + - - +
372C HIS 3.3 0.2 - - - -
373C ALA* 1.3 76.1 - - - +
375C THR* 1.3 59.3 + - - +
376C PHE 3.2 0.4 - - - -
377C ALA* 3.1 9.8 + - - +
378C ALA* 2.9 23.2 + - - +
389C VAL* 4.3 11.7 - - + -
391C ILE* 5.2 1.1 - - + -
396C LEU* 4.6 3.1 - - + -
399C ALA* 3.7 16.4 - - + -
402C GLN* 3.8 22.2 - - + -
403C VAL* 3.9 9.2 - - + +
407C VAL* 3.6 25.5 - - + +
416C PHE* 3.8 29.8 - - + -
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Residues in contact with THR 375 (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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371C GLN 3.4 7.4 + - - -
372C HIS 4.3 0.2 - - - -
374C VAL* 1.3 75.1 - - - +
376C PHE* 1.3 61.3 + - - +
378C ALA* 3.2 9.0 + - + +
379C GLY 3.0 21.0 + - - -
402C GLN* 3.1 16.6 - - - +
406C ASP* 2.5 26.0 + - + +
118D LEU* 5.6 0.2 - - + -
125D THR* 3.4 29.4 - - + -
128D SER* 3.3 27.1 - - - -
129D ALA* 3.4 14.2 - - + +
159D MSE 4.9 3.1 - - - -
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Residues in contact with PHE 376 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342C ILE* 3.4 32.8 - - + -
364C PHE* 3.5 51.6 - + + -
366C VAL* 4.4 1.1 - - + -
372C HIS* 2.8 32.1 + + + +
373C ALA 3.6 2.7 - - - +
375C THR* 1.3 76.4 - - - +
377C ALA* 1.3 64.6 + - - +
379C GLY* 2.9 11.4 + - - -
380C LEU* 3.0 21.8 + - + +
128D SER* 3.9 8.2 + - - -
131D ILE* 3.3 34.8 - - + -
132D GLY* 3.4 23.8 - - - -
135D VAL* 3.9 9.0 - - + -
166D HIS* 3.9 10.8 - + - -
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Residues in contact with ALA 377 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342C ILE* 3.9 10.5 - - + -
373C ALA 3.2 4.2 + - - +
374C VAL 3.1 13.4 + - - +
376C PHE* 1.3 80.9 - - - +
378C ALA* 1.3 60.0 + - - +
380C LEU* 3.0 11.1 + - - +
381C ALA* 3.0 11.1 + - - +
387C PRO* 3.3 27.6 - - + +
389C VAL* 3.5 30.1 - - + -
414C VAL* 3.9 11.4 - - + -
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Residues in contact with ALA 378 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374C VAL 2.9 10.0 + - - +
375C THR* 3.2 22.9 - - + +
376C PHE 3.1 0.2 - - - -
377C ALA* 1.3 75.8 - - - +
379C GLY* 1.3 62.9 + - - +
381C ALA 3.4 0.7 + - - -
382C ILE* 3.1 30.5 + - + +
406C ASP* 4.0 13.9 - - + +
407C VAL* 4.3 5.8 - - + -
410C GLN* 5.2 1.3 - - - +
412C LEU* 3.5 24.9 - - + +
414C VAL* 4.2 7.2 - - - +
118D LEU* 5.5 0.2 - - + -
129D ALA* 5.1 3.4 - - + -
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Residues in contact with GLY 379 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
375C THR 3.0 7.3 + - - -
376C PHE 2.9 8.6 + - - -
378C ALA* 1.3 77.2 - - - +
380C LEU* 1.3 60.3 + - - +
382C ILE* 3.2 2.5 + - - -
383C GLY 3.0 16.8 + - - -
129D ALA* 3.4 30.3 - - - +
132D GLY 3.6 6.9 - - - -
133D ILE* 3.5 17.9 + - - +
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Residues in contact with LEU 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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340C MSE 3.9 30.3 - - + -
342C ILE* 3.8 28.5 - - + -
364C PHE* 4.7 2.9 - - + -
376C PHE* 3.0 24.8 + - + +
377C ALA 3.0 6.7 + - - +
379C GLY* 1.3 74.6 - - - +
381C ALA* 1.3 61.4 + - - +
383C GLY* 3.1 8.2 + - - +
384C GLY 3.3 0.2 + - - -
385C TYR* 3.0 34.9 + - + +
387C PRO* 4.0 12.6 - - + -
132D GLY* 3.3 24.9 - - - +
135D VAL* 4.2 21.3 - - + -
136D ALA* 4.4 7.9 - - + +
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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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377C ALA 3.0 12.0 + - - +
378C ALA 3.8 7.4 - - - +
380C LEU* 1.3 72.0 - - - +
382C ILE* 1.3 66.4 + - - +
383C GLY 3.0 1.6 - - - -
384C GLY* 3.0 14.2 + - - -
385C TYR 3.4 13.0 - - - +
387C PRO* 3.9 13.8 - - + +
412C LEU* 4.2 25.0 - - + +
413C PRO* 4.5 15.0 - - + +
414C VAL* 4.4 4.7 - - + -
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Residues in contact with ILE 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 ALA 3.1 19.1 + - - +
379C GLY* 3.2 8.0 + - - +
381C ALA* 1.3 76.3 - - - +
383C GLY* 1.3 59.6 + - - +
384C GLY 3.2 1.4 + - - -
410C GLN* 4.2 4.7 - - - +
412C LEU* 3.7 27.6 - - + -
73D GLN* 4.9 4.8 - - - +
117D VAL* 3.6 42.8 - - + +
118D LEU* 4.1 20.6 - - + -
129D ALA* 5.0 0.2 - - + -
133D ILE* 4.1 15.9 - - + -
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Residues in contact with GLY 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 GLY 3.0 9.9 + - - -
380C LEU 3.1 4.5 + - - -
381C ALA 3.0 1.2 - - - -
382C ILE* 1.3 79.2 - - - +
384C GLY* 1.3 58.1 + - - +
385C TYR* 3.5 19.0 - - - -
133D ILE* 5.2 6.1 - - - -
136D ALA* 3.7 19.8 - - - +
140D GLU* 6.1 1.2 - - - -
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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