Contacts of the helix formed by residues 294 - 311 (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 ASP 294 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132C ARG* 3.2 50.5 + - - +
134C LEU* 6.0 0.4 - - - +
292C ILE 4.1 2.2 + - - -
293C ILE* 1.3 67.1 - - - +
295C THR* 1.3 56.9 + - - +
296C ASN* 3.2 17.8 + - - +
297C GLY* 3.2 23.2 + - - +
298C ALA* 2.9 30.6 + - - +
331C ILE* 5.7 1.6 - - - +
332C ARG* 4.6 30.9 + - + +
500C 5I5 4.5 7.4 - - - +
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Residues in contact with THR 295 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C ASN* 5.5 7.0 + - - -
132C ARG* 4.9 2.6 - - - +
223C ASN* 5.7 5.8 - - + +
224C GLU* 5.9 2.9 - - - +
267C GLY* 4.8 19.3 - - - -
293C ILE* 2.8 15.8 + - - +
294C ASP* 1.3 72.6 + - - +
296C ASN* 1.3 67.4 + - - +
298C ALA* 3.5 7.5 + - + +
299C GLY* 3.2 17.0 + - - -
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Residues in contact with ASN 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C ASN* 5.6 3.5 + - - -
37C ASP 5.1 0.9 - - - +
38C GLN* 3.4 39.5 - - - +
132C ARG* 5.0 9.4 - - - +
134C LEU* 4.1 12.6 - - + +
223C ASN* 5.0 8.9 + - - -
226C GLU* 5.3 0.4 + - - -
294C ASP* 3.1 9.6 + - - +
295C THR* 1.3 81.4 - - - +
297C GLY* 1.3 59.4 + - - +
299C GLY* 2.9 19.1 + - - -
300C ASP* 3.1 14.9 + - - +
500C 5I5 3.5 20.9 - - + -
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Residues in contact with GLY 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ASN* 5.6 3.6 - - - -
294C ASP* 3.2 25.1 + - - -
296C ASN* 1.3 78.1 - - - +
298C ALA* 1.3 56.9 + - - +
300C ASP* 3.3 11.9 + - - +
301C ALA* 2.9 29.3 + - - +
330C ILE 4.9 4.4 - - - +
332C ARG* 6.4 1.3 - - - -
500C 5I5 4.1 3.5 - - - +
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Residues in contact with ALA 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293C ILE* 6.0 5.6 - - + -
294C ASP 2.9 17.4 + - - +
295C THR* 3.7 9.2 - - - +
297C GLY* 1.3 75.7 - - - +
299C GLY* 1.3 55.1 + - - +
301C ALA* 3.4 6.7 + - - +
302C PHE* 2.8 35.2 + - - +
327C ALA* 3.9 25.4 - - + +
330C ILE 5.2 1.6 - - - -
331C ILE* 6.4 1.1 - - + -
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Residues in contact with GLY 299 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196C ASN* 5.9 1.6 - - - -
265C THR* 5.0 13.6 - - - +
295C THR 3.2 10.5 + - - -
296C ASN* 2.9 8.6 + - - -
298C ALA* 1.3 75.9 - - - +
300C ASP* 1.3 61.5 + - - +
302C PHE* 3.4 7.9 + - - +
303C VAL* 3.2 27.8 + - - +
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Residues in contact with ASP 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C SER* 2.8 30.6 + - - -
68C ASN* 3.7 23.1 + - + +
69C SER* 2.6 32.1 + - - +
72C VAL* 5.0 0.7 - - - -
166C TYR* 5.5 0.3 + - - -
196C ASN* 5.4 4.7 + - - -
296C ASN 3.1 9.4 + - - +
297C GLY* 3.6 8.1 - - - +
298C ALA 3.2 0.2 - - - -
299C GLY* 1.3 78.0 - - - +
301C ALA* 1.3 61.7 + - - +
303C VAL* 3.4 2.8 + - - -
304C GLY 3.2 10.2 + - - -
500C 5I5 3.3 32.6 - - - +
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Residues in contact with ALA 301 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C VAL* 3.4 22.9 - - + +
297C GLY 2.9 16.7 + - - +
298C ALA* 3.6 5.2 - - - +
300C ASP* 1.3 74.0 - - - +
302C PHE* 1.3 64.9 + - - +
304C GLY 3.3 0.5 + - - -
305C GLY 3.0 18.5 + - - -
326C ALA* 3.2 33.2 - - - +
327C ALA* 4.0 4.5 - - - -
330C ILE* 4.2 14.8 - - + +
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Residues in contact with PHE 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221C PHE* 4.7 6.5 - + - -
263C ILE* 4.1 26.0 - - + -
265C THR* 4.3 18.8 - - + -
271C THR* 4.1 10.3 - - + -
298C ALA 2.8 20.6 + - - +
299C GLY* 3.6 8.5 - - - +
300C ASP 3.4 0.2 - - - -
301C ALA* 1.3 72.0 - - - +
303C VAL* 1.3 73.9 + - + +
305C GLY 3.1 1.4 + - - -
306C PHE* 2.9 48.3 + + + -
320C ILE* 3.9 14.1 - - + -
323C GLY* 3.2 36.2 + - - +
324C HIS* 3.7 35.9 - + - -
327C ALA* 4.3 5.3 - - + +
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Residues in contact with VAL 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C SER* 3.6 17.7 - - - +
166C TYR* 3.7 18.8 - - + +
196C ASN* 3.7 25.6 - - - +
221C PHE* 4.2 22.2 - - + -
299C GLY 3.2 13.9 + - - +
300C ASP* 3.6 1.8 - - - +
301C ALA 3.3 0.2 - - - -
302C PHE* 1.3 86.8 - - + +
304C GLY* 1.3 58.3 + - - +
306C PHE* 3.1 5.6 + - - +
307C LEU* 2.8 53.0 + - + +
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Residues in contact with GLY 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C SER 3.3 27.1 - - - -
72C VAL* 3.9 9.0 - - - -
73C ALA* 3.4 13.6 - - - +
300C ASP 3.2 8.4 + - - -
301C ALA 3.3 3.1 + - - -
303C VAL* 1.3 78.0 - - - +
305C GLY* 1.3 62.9 + - - +
307C LEU* 4.1 3.1 - - - -
308C SER* 3.0 23.9 + - - -
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Residues in contact with GLY 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C VAL* 3.8 1.6 - - - +
76C MET* 4.2 6.3 - - - -
301C ALA 3.0 11.5 + - - -
302C PHE 3.6 2.9 - - - -
304C GLY* 1.3 73.1 - - - +
306C PHE* 1.3 65.4 + - - +
308C SER* 2.5 26.1 + - - -
309C GLN 3.6 1.6 + - - -
322C ALA* 3.7 26.1 - - - +
323C GLY 3.7 6.5 - - - -
326C ALA* 3.9 9.2 - - - -
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Residues in contact with PHE 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219C ILE* 4.3 15.5 - - + -
221C PHE* 4.1 18.4 - + + -
261C ILE* 5.5 0.7 - - + -
263C ILE* 3.4 31.0 - - + -
273C MET* 4.4 1.1 - - + -
302C PHE* 2.9 34.7 + + + +
303C VAL* 3.4 9.4 - - - +
305C GLY* 1.3 73.8 - - - +
307C LEU* 1.3 65.9 + - + +
309C GLN* 3.0 7.3 + - - +
310C LEU* 3.0 36.7 + - + -
316C LEU* 3.9 17.9 - - + -
319C CYS* 3.2 49.6 - - + +
320C ILE* 4.0 7.2 - - + -
323C GLY* 3.6 2.2 - - - -
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Residues in contact with LEU 307 (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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9C LEU* 4.2 23.1 - - + -
69C SER* 4.6 4.7 - - - +
70C ILE* 5.2 1.3 - - + -
73C ALA* 4.8 2.0 - - + -
164C VAL* 4.0 25.6 - - + +
166C TYR* 4.0 22.2 - - + -
194C THR* 4.0 19.5 - - + +
221C PHE* 4.5 11.9 - - + -
303C VAL* 2.8 44.7 + - + +
304C GLY* 3.8 9.0 - - - +
306C PHE* 1.3 74.1 - - + +
308C SER* 1.3 57.9 + - - +
309C GLN 3.0 5.4 + - - -
310C LEU* 3.8 8.8 - - + +
311C VAL* 3.0 29.3 + - - +
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Residues in contact with SER 308 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C ALA* 3.8 7.8 - - - +
76C MET* 3.1 36.4 - - - +
77C ILE* 4.0 21.1 - - - +
304C GLY 3.0 12.4 + - - -
305C GLY 2.5 19.9 + - - -
307C LEU* 1.3 75.7 - - - +
309C GLN* 1.3 76.6 + - - +
311C VAL* 3.9 11.5 - - - +
312C SER* 4.1 4.5 + - - -
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Residues in contact with GLN 309 (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* 4.2 15.1 - - - -
76C MET* 5.1 8.5 + - - +
305C GLY 3.9 2.0 - - - +
306C PHE 3.0 5.3 + - - +
307C LEU 3.0 0.2 - - - -
308C SER* 1.3 103.2 + - - +
310C LEU* 1.3 53.9 + - - +
311C VAL 2.9 4.7 - - - -
312C SER* 2.7 32.1 + - - -
313C ASP 3.4 6.2 + - - -
314C LYS* 3.3 38.6 + - + +
318C GLU* 3.7 15.0 - - - +
319C CYS* 3.9 10.8 - - - -
322C ALA* 3.6 30.8 - - + +
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Residues in contact with LEU 310 (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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164C VAL* 3.1 49.8 - - + +
192C ILE* 3.9 26.2 - - + +
194C THR* 5.0 1.8 - - + -
219C ILE* 4.1 18.2 - - + -
306C PHE* 3.0 34.4 + - + +
307C LEU* 3.8 7.6 - - + +
309C GLN* 1.3 76.3 - - - +
311C VAL* 1.3 56.3 + - - +
313C ASP* 3.0 23.8 + - - +
314C LYS 4.8 3.8 - - - +
316C LEU* 4.9 7.6 - - + -
319C CYS* 3.5 15.6 - - - -
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Residues in contact with VAL 311 (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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4C VAL* 4.2 7.6 - - + +
8C ILE* 2.9 75.6 - - + +
9C LEU* 4.3 13.5 - - + -
77C ILE* 4.5 13.0 - - + -
163C ARG* 4.7 4.9 - - - +
164C VAL* 4.0 16.2 - - + -
307C LEU 3.0 14.6 + - - +
308C SER* 3.9 17.7 - - - +
309C GLN 2.8 0.2 + - - -
310C LEU* 1.3 78.9 - - - +
312C SER* 1.3 63.7 + - - +
313C ASP* 3.5 4.4 + - - +
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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) + - + + + + + -
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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