Contacts of the helix formed by residues 316 - 335 (chain C) in PDB entry 3OLJ
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 ASN 316 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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310C VAL* 4.5 0.2 - - - -
314C GLY 4.1 0.2 + - - -
315C MET* 1.3 72.2 - - - +
317C CYS* 1.3 59.6 + - - +
318C THR* 2.9 24.6 + - - -
319C LEU* 3.2 38.5 + - + +
320C MET* 2.9 28.1 + - - +
347C PHE* 4.9 4.0 - - + -
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Residues in contact with CYS 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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304C LEU 4.1 9.4 - - - -
305C THR* 3.8 25.8 - - + +
309C PRO* 4.7 1.1 - - - -
310C VAL* 3.7 25.6 - - - -
311C LYS* 3.5 45.2 - - - +
315C MET 3.5 1.8 + - - -
316C ASN* 1.3 72.0 + - - +
318C THR* 1.3 58.5 - - - +
320C MET* 3.3 2.4 + - - +
321C LYS* 3.0 32.0 + - - +
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Residues in contact with THR 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316C ASN* 2.9 12.7 + - - -
317C CYS* 1.3 76.3 - - - +
319C LEU* 1.3 69.2 + - + +
321C LYS* 3.4 14.1 + - + +
322C GLN* 3.3 18.2 + - - +
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Residues in contact with LEU 319 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316C ASN* 3.2 34.3 + - + +
318C THR* 1.3 78.6 - - + +
320C MET* 1.3 60.8 + - - +
322C GLN* 3.0 16.2 + - - +
323C TYR 2.9 24.3 + - - -
346C PRO* 3.3 31.0 - - + +
347C PHE* 3.9 22.9 - - + -
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Residues in contact with MET 320 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C GLY* 3.7 22.7 - - - +
241C ALA* 3.9 9.9 - - + -
304C LEU* 3.7 36.6 - - + -
305C THR* 5.8 0.4 - - + -
310C VAL* 4.1 19.3 - - + -
315C MET* 3.6 37.5 - - + -
316C ASN 2.9 14.0 + - - +
317C CYS* 3.5 9.4 - - - +
318C THR 3.3 0.2 - - - -
319C LEU* 1.3 77.2 - - - +
321C LYS* 1.3 62.5 + - - +
323C TYR* 3.2 5.4 + - - -
324C ILE* 3.2 32.9 + - - +
347C PHE* 3.8 15.6 - - + -
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Residues in contact with LYS 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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301C GLN* 3.0 56.2 + - + +
305C THR* 3.7 34.2 + - + -
317C CYS 3.0 16.0 + - - +
318C THR* 3.5 14.1 - - + +
319C LEU 3.3 0.2 - - - -
320C MET* 1.3 74.9 - - - +
322C GLN* 1.3 62.1 + - - +
324C ILE* 3.4 2.9 + - - +
325C GLU* 3.3 13.9 + - - +
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Residues in contact with GLN 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318C THR* 3.3 8.3 + - - +
319C LEU* 3.0 22.1 + - - +
321C LYS* 1.3 77.5 - - - +
323C TYR* 1.3 65.3 + - - +
325C GLU* 3.1 9.2 + - - -
326C PHE* 3.0 19.9 + - - +
343C VAL* 3.6 23.5 - - + +
344C GLU* 2.9 40.3 + - - +
346C PRO* 3.8 20.2 - - + +
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Residues in contact with TYR 323 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
237C SER* 3.5 25.6 + - - -
241C ALA* 3.7 16.2 - - + -
319C LEU 2.9 6.5 + - - +
320C MET* 3.5 6.3 - - - +
322C GLN* 1.3 77.4 - - - +
324C ILE* 1.3 73.5 + - + +
326C PHE* 3.1 14.0 + + - +
327C VAL* 2.9 47.0 + - + +
330C ARG* 4.7 6.4 + - - -
345C ASN* 3.4 22.0 - - - -
346C PRO* 3.6 9.4 - - + +
347C PHE* 3.5 29.4 - + + -
350C MET* 3.3 44.9 - - + +
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Residues in contact with ILE 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
234C ILE* 4.0 15.3 - - + +
237C SER* 3.5 19.5 - - - +
238C GLY* 3.8 10.1 - - - +
297C VAL* 3.9 20.9 - - + +
300C GLU* 3.8 21.5 - - + -
301C GLN* 4.2 10.5 - - + -
304C LEU* 3.6 31.2 - - + -
320C MET* 3.2 22.1 + - - +
321C LYS* 3.6 7.4 - - - +
322C GLN 3.3 0.2 - - - -
323C TYR* 1.3 78.7 - - + +
325C GLU* 1.3 57.5 + - - +
327C VAL* 3.3 7.5 + - - +
328C ALA* 3.0 26.2 + - - +
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Residues in contact with GLU 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297C VAL* 3.8 8.3 - - + -
298C ARG* 3.0 24.1 + - - -
301C GLN* 3.1 21.4 + - - +
321C LYS* 3.3 6.0 + - - +
322C GLN* 3.1 9.9 + - - +
324C ILE* 1.3 75.5 - - - +
326C PHE* 1.3 59.4 + - - +
328C ALA* 3.7 3.6 - - - +
329C ASP* 2.9 34.0 + - - +
341C PHE* 3.5 44.5 - - + +
343C VAL* 3.7 18.5 - - + +
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Residues in contact with PHE 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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322C GLN 3.0 12.7 + - - +
323C TYR* 3.4 17.9 - + - +
325C GLU* 1.3 76.1 - - - +
327C VAL* 1.3 66.1 + - + +
329C ASP* 3.4 8.9 + - + +
330C ARG* 3.1 62.8 + - + +
339C LYS* 6.4 2.7 - - - -
343C VAL* 3.7 17.1 - - - +
344C GLU* 3.9 12.6 - - - +
345C ASN* 3.6 52.0 - - + -
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Residues in contact with VAL 327 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233C GLY 3.2 29.4 - - - +
234C ILE* 4.5 6.1 - - + -
237C SER* 4.0 10.1 - - - +
323C TYR* 2.9 54.5 + - + +
324C ILE* 3.5 9.9 - - - +
326C PHE* 1.3 77.4 - - + +
328C ALA* 1.3 63.3 + - - +
330C ARG* 3.2 24.2 + - - +
331C LEU* 3.0 22.7 + - + +
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Residues in contact with ALA 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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234C ILE* 3.8 13.7 - - + +
293C ILE* 3.8 14.4 - - + +
297C VAL* 3.4 33.7 - - + -
324C ILE 3.0 10.7 + - - +
325C GLU 3.7 4.9 - - - +
326C PHE 3.3 0.2 - - - -
327C VAL* 1.3 76.3 - - - +
329C ASP* 1.3 55.9 - - - +
331C LEU* 3.3 4.7 + - - +
332C MET* 2.9 34.8 + - - +
341C PHE* 4.1 7.0 - - + -
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Residues in contact with ASP 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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325C GLU 2.9 16.3 + - - +
326C PHE* 3.5 12.1 - - + +
328C ALA* 1.3 76.0 - - - +
330C ARG* 1.3 56.1 + - - +
332C MET* 3.3 7.2 + - - +
333C LEU* 3.0 33.7 + - - +
339C LYS* 3.9 20.3 - - + +
340C VAL* 2.8 26.8 + - - +
341C PHE* 2.9 16.8 + - - -
342C ARG* 2.7 30.7 + - - -
343C VAL 3.6 9.5 + - - +
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Residues in contact with ARG 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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323C TYR* 4.7 6.7 + - - -
326C PHE* 3.1 50.1 + - + +
327C VAL* 3.2 31.7 + - - +
329C ASP* 1.3 73.4 - - - +
331C LEU* 1.3 60.7 + - - +
333C LEU* 3.5 12.8 + - + +
334C GLU* 3.0 31.9 + - + +
350C MET 5.8 3.0 + - - -
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Residues in contact with LEU 331 (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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229C ALA* 4.1 37.0 - - + +
233C GLY* 5.6 2.0 - - - -
234C ILE* 4.2 15.3 - - + -
270C CYS* 5.0 9.0 - - + -
274C CYS* 3.7 25.1 - - - -
293C ILE* 3.8 29.2 - - + -
327C VAL* 3.0 14.4 + - + +
328C ALA* 3.6 8.5 - - - +
330C ARG* 1.3 74.8 - - - +
332C MET* 1.3 54.3 + - - +
334C GLU* 3.2 8.9 + - - +
335C LEU* 2.8 44.2 + - + +
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Residues in contact with MET 332 (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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286C GLU* 4.5 1.8 - - + +
289C VAL* 3.7 28.9 - - + -
290C ARG* 3.8 29.8 - - + +
293C ILE* 3.8 24.5 - - + -
328C ALA 2.9 19.4 + - - +
329C ASP* 3.4 10.8 - - - +
331C LEU* 1.3 76.9 - - - +
333C LEU* 1.3 58.5 + - - +
335C LEU* 3.2 11.9 + - - +
336C GLY 3.3 0.5 + - - -
337C PHE* 2.9 52.7 + - + +
338C SER 3.8 18.2 - - - +
339C LYS* 4.8 0.2 - - - -
340C VAL* 3.8 17.0 - - + -
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Residues in contact with LEU 333 (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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329C ASP 3.0 18.2 + - - +
330C ARG* 3.7 11.9 - - + +
331C LEU 3.3 0.2 - - - -
332C MET* 1.3 74.6 - - - +
334C GLU* 1.3 59.0 + - - +
336C GLY* 2.9 20.1 + - - -
337C PHE 3.5 18.7 - - - +
338C SER* 4.5 1.3 - - - -
339C LYS* 3.7 44.6 - - + +
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Residues in contact with GLU 334 (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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270C CYS* 5.0 2.1 - - - +
271C ASP* 2.7 42.7 + - - +
274C CYS* 3.8 34.5 - - + +
278C LYS* 6.1 0.5 - - - +
330C ARG* 3.0 22.6 + - + +
331C LEU* 3.6 11.1 - - - +
333C LEU* 1.3 76.5 - - - +
335C LEU* 1.3 58.9 + - - +
336C GLY 3.2 1.3 + - - -
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Residues in contact with LEU 335 (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 VAL* 4.0 28.9 - - + -
229C ALA* 5.6 2.7 - - + -
273C ALA 4.9 1.1 - - - +
274C CYS* 3.8 24.0 - - - +
277C PHE* 3.6 58.5 - - + -
283C LYS* 5.7 1.4 + - - -
289C VAL* 4.1 16.8 - - + -
293C ILE* 5.1 0.4 - - + -
331C LEU* 2.8 34.9 + - + +
332C MET* 3.5 10.3 - - - +
333C LEU 3.2 0.6 - - - -
334C GLU* 1.3 75.1 - - - +
336C GLY* 1.3 59.5 + - - +
337C PHE* 3.5 13.8 - - + -
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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
------------------------------------------------------------
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