Contacts of the helix formed by residues 315 - 330 (chain C) in PDB entry 2I6A
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 PRO 315 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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313C ASP 4.2 2.2 - - - +
314C LYS* 1.3 96.9 - - + +
316C LEU* 1.3 56.0 + - - +
317C THR* 4.3 8.7 - - - +
318C GLU* 2.7 38.5 + - + +
319C CYS* 2.9 9.7 + - - -
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Residues in contact with LEU 316 (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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219C ILE* 5.1 0.7 - - + -
261C ILE* 3.8 34.3 - - + -
273C MET* 3.9 28.2 - - + +
275C THR* 4.2 12.1 - - + -
306C PHE* 3.9 25.4 - - + -
310C LEU* 4.9 9.6 - - + -
314C LYS 3.7 1.7 + - - +
315C PRO* 1.3 68.0 - - - +
317C THR* 1.3 65.7 + - - +
319C CYS* 3.0 10.4 + - - +
320C ILE* 2.9 29.7 + - - +
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Residues in contact with THR 317 (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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282C PHE* 4.2 22.4 - - + -
315C PRO* 3.2 7.2 - - - +
316C LEU* 1.3 78.1 - - - +
318C GLU* 1.3 61.4 + - - +
320C ILE* 3.6 12.8 + - - +
321C ARG* 3.1 30.4 + - + +
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Residues in contact with GLU 318 (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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344B PHE* 4.0 5.2 - - + -
345B HIS* 4.7 4.2 - - - +
309C GLN* 3.7 14.3 - - - +
314C LYS* 3.9 24.3 - - + +
315C PRO* 2.7 29.7 + - + +
317C THR* 1.3 81.5 - - - +
319C CYS* 1.3 61.6 + - - +
320C ILE 3.3 0.4 - - - -
321C ARG* 2.6 42.4 + - - +
322C ALA* 3.3 17.5 + - - +
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Residues in contact with CYS 319 (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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306C PHE* 3.2 48.7 - - + +
309C GLN* 3.9 10.3 - - - -
310C LEU* 3.5 40.4 - - - -
314C LYS 3.7 18.8 - - - -
315C PRO 2.9 5.4 + - - -
316C LEU* 3.2 13.2 - - - +
318C GLU* 1.3 78.6 - - - +
320C ILE* 1.3 55.8 + - - +
322C ALA* 3.5 1.0 + - - +
323C GLY* 3.1 22.3 + - - -
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Residues in contact with ILE 320 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263C ILE* 3.9 13.2 - - + -
271C THR* 4.9 4.3 - - + -
273C MET* 3.0 36.3 - - + -
282C PHE* 3.3 48.0 - - + -
302C PHE* 3.9 9.4 - - + -
306C PHE* 4.1 5.2 - - + -
316C LEU 2.9 17.0 + - - +
317C THR 3.7 5.2 - - - +
319C CYS* 1.3 74.5 - - - +
321C ARG* 1.3 54.5 + - - +
323C GLY* 3.2 1.4 + - - -
324C HIS* 2.8 62.3 + - + +
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Residues in contact with ARG 321 (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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344B PHE* 2.9 43.3 + - + -
345B HIS* 2.5 29.7 + - - +
285C LEU* 5.0 1.6 - - - +
317C THR* 3.1 22.8 + - + +
318C GLU* 2.6 48.9 + - - +
319C CYS 3.2 0.2 - - - -
320C ILE* 1.3 78.9 - - - +
322C ALA* 1.3 56.3 + - - +
324C HIS* 3.5 10.3 + - + +
325C TYR* 3.1 24.9 + - - +
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Residues in contact with ALA 322 (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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344B PHE* 3.4 28.5 - - + -
76C MET* 3.5 17.9 - - + +
305C GLY* 3.7 9.2 - - - +
309C GLN* 3.6 24.7 - - + -
318C GLU 3.3 3.6 + - - +
319C CYS 4.2 0.2 - - - +
321C ARG* 1.3 75.1 - - - +
323C GLY* 1.3 60.0 + - - +
325C TYR* 3.5 3.4 - - - +
326C ALA* 2.8 32.9 + - - +
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Residues in contact with GLY 323 (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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302C PHE* 3.2 44.0 - - - -
305C GLY* 3.9 0.9 - - - -
306C PHE* 3.6 5.7 - - - +
319C CYS 3.1 12.5 + - - -
320C ILE 3.6 3.4 - - - -
322C ALA* 1.3 77.7 - - - +
324C HIS* 1.3 61.2 + - - +
326C ALA 3.5 0.2 + - - -
327C ALA* 3.2 23.9 + - - +
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Residues in contact with HIS 324 (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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271C THR* 2.8 32.3 + - - -
282C PHE* 4.0 5.1 - - + +
283C ALA 3.6 19.4 + - - -
284C VAL* 3.9 30.3 - - + +
285C LEU* 3.6 25.8 - - + +
287C GLN* 4.1 4.6 + - - +
302C PHE* 3.7 12.6 - + - -
320C ILE* 2.8 45.6 + - + +
321C ARG* 3.7 8.3 - - + +
323C GLY* 1.3 72.4 - - - +
325C TYR* 1.3 61.1 + - - +
327C ALA* 3.5 7.3 - - - +
328C SER* 3.4 16.3 + - - -
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Residues in contact with TYR 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339B PRO* 5.5 1.9 - - - +
341B LYS 4.5 0.5 + - - -
342B PRO* 3.0 28.0 - - + +
343B ASP* 2.4 48.4 + - + +
344B PHE* 3.4 24.2 - + + -
75C TRP* 4.1 6.5 - + - -
76C MET* 3.2 27.1 - - + -
285C LEU* 3.7 14.8 - - + +
321C ARG 3.1 17.4 + - - +
322C ALA 3.5 3.1 - - - +
323C GLY 3.2 0.2 - - - -
324C HIS* 1.3 76.2 - - - +
326C ALA* 1.3 62.6 + - - +
328C SER* 2.7 23.7 + - - -
329C ILE* 3.2 34.9 + - + +
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Residues in contact with ALA 326 (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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72C VAL* 3.8 17.0 - - + -
75C TRP* 5.1 0.7 - - - -
76C MET* 4.3 8.3 - - + -
301C ALA* 3.2 24.0 - - - +
305C GLY* 3.9 7.4 - - - -
322C ALA 2.8 20.8 + - - +
323C GLY 4.0 0.7 - - - +
325C TYR* 1.3 81.3 - - - +
327C ALA* 1.3 57.3 + - - +
329C ILE* 5.0 1.1 - - - -
330C ILE* 3.1 40.3 + - + +
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Residues in contact with ALA 327 (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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284C VAL* 6.5 0.2 - - + -
287C GLN* 4.1 11.6 - - - +
298C ALA* 3.9 32.0 - - + +
301C ALA* 4.0 11.8 - - - +
302C PHE* 4.3 6.1 - - + +
323C GLY 3.2 15.9 + - - +
324C HIS* 3.5 11.0 - - - +
325C TYR 3.2 0.2 - - - -
326C ALA* 1.3 78.5 - - - +
328C SER* 1.3 59.4 + - - +
330C ILE 3.9 11.1 - - - +
331C ILE* 4.0 8.0 - - - +
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Residues in contact with SER 328 (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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285C LEU* 3.8 11.3 - - - +
287C GLN* 3.5 35.5 - - - +
324C HIS 3.4 9.1 + - - -
325C TYR* 2.7 28.9 + - - -
327C ALA* 1.3 78.7 - - - +
329C ILE* 1.3 65.6 + - - +
331C ILE* 2.8 23.7 - - - +
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Residues in contact with ILE 329 (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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57B LYS* 4.9 21.8 - - + -
338B PHE* 4.1 4.9 - - + -
339B PRO* 3.1 46.4 - - + +
75C TRP* 3.9 15.7 - - + -
325C TYR* 3.2 43.5 + - + +
326C ALA 4.2 1.8 - - - +
328C SER* 1.3 86.2 + - - +
330C ILE* 1.3 61.8 + - + +
331C ILE* 2.8 23.9 + - - +
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Residues in contact with ILE 330 (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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338B PHE* 3.7 48.5 - - + -
72C VAL* 4.2 26.9 - - + -
75C TRP* 3.8 41.3 - - + -
297C GLY 4.9 4.5 - - - +
298C ALA* 5.2 2.3 - - - -
301C ALA* 4.2 14.6 - - + +
326C ALA 3.1 16.5 + - - +
327C ALA 3.9 8.3 - - - +
329C ILE* 1.3 76.3 - - + +
331C ILE* 1.3 61.7 + - - +
332C ARG 4.2 0.8 + - - +
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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
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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