Contacts of the helix formed by residues 312 - 328 (chain N) in PDB entry 2EIN
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 ILE 312 (chain N).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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244N TYR* 3.6 30.7 - - + +
280N ILE* 4.3 14.1 - - + +
283N LEU* 3.8 39.9 - - + +
284N GLY 4.6 0.9 - - - +
287N VAL* 4.3 20.6 - - + -
308N ALA 4.1 4.3 - - - +
309N THR* 3.5 18.8 - - + +
310N MET 3.3 0.4 - - - -
311N ILE* 1.3 75.4 - - - +
313N ALA* 1.3 55.8 - - - +
314N ILE 3.3 0.2 - - - -
315N PRO* 3.3 4.0 - - + +
316N THR* 2.6 40.9 + - - +
516N HEA 3.6 22.9 - - - +
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Residues in contact with ALA 313 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309N THR 4.5 0.4 + - - -
310N MET 3.3 15.9 + - - +
311N ILE 2.7 2.2 + - - -
312N ILE* 1.3 79.2 - - - +
314N ILE* 1.3 51.4 + - - +
316N THR* 3.6 1.0 - - - -
317N GLY* 2.7 33.3 + - - -
356N ILE* 4.1 6.2 - - + +
516N HEA 3.3 46.6 - - + +
69O PRO* 5.3 0.7 - - - -
73O LEU* 3.9 20.6 - - + -
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Residues in contact with ILE 314 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265C PEK 4.0 29.8 - - + -
269G CDL 4.3 17.3 - - + -
275N TRP* 4.4 4.9 - - + -
311N ILE* 2.8 14.3 + - + +
313N ALA* 1.3 73.2 - - - +
315N PRO* 1.4 73.2 - - + +
317N GLY* 3.1 10.4 + - - -
318N VAL* 3.1 16.5 + - - +
65O TRP 4.9 2.1 - - - +
66O THR* 3.8 31.0 - - + +
69O PRO* 4.7 7.1 - - - +
70O ALA* 4.0 31.6 - - + +
73O LEU* 3.9 24.2 - - + -
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Residues in contact with PRO 315 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
265C PEK 4.5 10.8 - - + -
275N TRP* 3.8 15.9 - - + -
276N ALA* 3.6 34.1 - - - +
279N SER* 3.8 19.1 - - - -
280N ILE* 4.0 12.3 - - + -
283N LEU* 4.4 5.2 - - + -
311N ILE 3.3 9.6 - - - +
312N ILE* 3.3 19.1 - - - +
314N ILE* 1.4 95.2 - - + +
316N THR* 1.3 60.4 + - - +
318N VAL* 3.1 19.2 + - - +
319N LYS* 3.3 4.9 + - - +
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Residues in contact with THR 316 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
244N TYR* 5.8 0.3 - - - -
251N PHE* 4.5 11.0 - - + -
280N ILE* 3.4 20.7 - - + +
312N ILE* 2.6 31.4 + - - +
313N ALA 3.8 2.7 - - - -
314N ILE 3.2 0.4 - - - -
315N PRO* 1.3 76.3 - - - +
317N GLY* 1.3 62.1 + - - +
319N LYS* 3.4 7.9 + - + +
320N VAL* 3.3 21.9 + - + +
348N PHE* 4.1 22.2 - - + -
516N HEA 3.7 33.3 + - + +
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Residues in contact with GLY 317 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313N ALA 2.7 21.9 + - - -
314N ILE* 3.1 3.5 + - - -
316N THR* 1.3 73.7 - - - +
318N VAL* 1.3 62.3 + - - +
320N VAL* 3.3 3.2 + - - +
321N PHE* 3.0 35.0 + - - -
516N HEA 3.7 28.0 - - - +
65O TRP 4.8 1.1 - - - -
69O PRO* 5.3 2.0 - - - -
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Residues in contact with VAL 318 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86G CHD 5.1 1.3 - - + -
272N GLY 4.6 16.4 - - - +
273N MET 5.2 0.2 - - - +
275N TRP* 3.7 21.8 - - + -
276N ALA* 4.7 1.6 - - + -
314N ILE 3.1 17.0 + - - +
315N PRO* 3.1 9.2 - - + +
317N GLY* 1.3 74.5 - - - +
319N LYS* 1.3 64.3 + - + +
321N PHE* 3.1 4.5 + - - +
322N SER* 2.8 29.1 + - - +
62O GLU* 3.8 31.9 - - + +
65O TRP* 4.2 19.8 + - + +
66O THR* 3.9 15.7 - - - +
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Residues in contact with LYS 319 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183N LEU* 5.2 0.2 - - - +
251N PHE* 3.9 34.7 + - + -
255N SER* 4.4 6.0 + - - -
273N MET* 3.4 39.0 + - - +
276N ALA* 3.6 25.8 - - + -
277N MET* 3.4 28.9 - - + +
280N ILE* 4.6 6.5 - - + -
315N PRO 3.3 4.9 + - - +
316N THR* 3.7 8.5 - - + +
317N GLY 3.3 0.2 - - - -
318N VAL* 1.3 75.8 - - - +
320N VAL* 1.3 62.8 + - - +
322N SER* 3.1 3.8 + - - -
323N TRP* 2.9 58.0 + - + -
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Residues in contact with VAL 320 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316N THR 3.3 10.0 + - - +
317N GLY 3.3 8.6 + - - +
318N VAL 3.3 0.4 - - - -
319N LYS* 1.3 77.9 - - - +
321N PHE* 1.3 83.9 + - + +
323N TRP* 3.1 28.6 + - + +
324N LEU* 3.1 23.7 + - + +
345N ILE* 4.7 12.5 - - + +
348N PHE* 4.9 11.9 - - + -
349N THR* 4.3 19.5 - - - +
516N HEA 4.4 22.4 - - + -
38O VAL* 4.5 8.5 - - + -
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Residues in contact with PHE 321 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317N GLY 3.0 28.9 + - - +
318N VAL 3.8 0.2 - - - +
320N VAL* 1.3 88.9 - - + +
322N SER* 1.3 57.4 + - - +
324N LEU* 3.1 11.1 + - + +
325N ALA* 2.8 28.1 + - - +
516N HEA 3.7 30.5 - - + -
34O ILE* 5.7 2.5 - - + -
37O LEU* 6.2 2.9 - - + -
38O VAL* 4.6 11.0 - - + -
41O ILE* 5.6 1.6 - - + -
65O TRP* 3.3 51.5 - + + -
69O PRO* 4.4 2.9 - - + -
1230O PSC 3.3 58.8 - - + -
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Residues in contact with SER 322 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268N PHE* 3.5 30.7 + - - +
269N GLY* 5.2 0.5 + - - -
273N MET* 3.2 32.6 - - - +
318N VAL* 2.8 26.7 + - - +
319N LYS 3.1 3.3 + - - -
321N PHE* 1.3 75.6 - - - +
323N TRP* 1.3 53.5 + - - +
325N ALA* 3.1 2.6 + - - +
326N THR* 2.8 37.9 + - - -
62O GLU* 4.1 5.5 + - - -
65O TRP* 4.2 2.7 - - - -
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Residues in contact with TRP 323 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251N PHE* 3.4 52.0 - + - -
254N ILE* 3.5 16.8 - - + -
255N SER* 2.8 34.3 + - - +
258N VAL* 3.5 13.1 - - + +
267N PRO* 6.4 0.7 - - + -
273N MET* 3.5 15.3 - - + +
319N LYS* 2.9 36.4 + - + -
320N VAL* 3.3 36.1 - - + +
322N SER* 1.3 74.6 - - - +
324N LEU* 1.3 65.5 + - - +
326N THR* 3.3 6.0 + - - -
327N LEU* 3.1 25.0 + - - +
344N PHE* 3.9 19.7 - + - -
345N ILE* 3.9 28.0 - - + -
348N PHE* 5.3 2.2 - + - -
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Residues in contact with LEU 324 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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320N VAL* 3.1 17.4 + - + +
321N PHE* 3.1 25.9 + - + +
323N TRP* 1.3 76.9 - - - +
325N ALA* 1.3 58.2 + - - +
327N LEU* 3.1 22.8 + - + +
328N HIS 2.9 22.5 + - - -
345N ILE* 4.1 15.7 - - + -
38O VAL* 4.5 13.7 - - + +
41O ILE* 3.2 38.4 - - + -
42O ILE* 3.8 24.9 - - + -
45O MET* 3.5 9.9 - - + +
1230O PSC 4.2 9.0 - - + -
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Residues in contact with ALA 325 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264N LYS* 3.6 7.3 + - - -
268N PHE* 3.3 39.3 - - + -
321N PHE 2.8 13.6 + - - +
322N SER 3.4 3.6 - - - +
324N LEU* 1.3 75.6 - - - +
326N THR* 1.3 64.4 + - - +
328N HIS* 3.0 23.3 + - - +
56O MET* 3.9 6.8 - - - +
65O TRP* 4.1 2.2 - - + -
1230O PSC 3.9 21.3 - - + +
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Residues in contact with THR 326 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258N VAL* 3.9 5.8 - - + -
259N THR* 3.5 43.1 - - - +
262N SER* 3.3 10.6 + - - +
264N LYS* 2.8 35.9 + - + +
266N GLU 4.4 0.7 - - - +
267N PRO* 3.7 8.5 - - + +
268N PHE* 2.9 26.2 + - - +
273N MET* 5.4 0.7 - - - +
322N SER 2.8 14.3 + - - -
323N TRP* 3.6 12.9 - - - -
324N LEU 3.2 0.2 - - - -
325N ALA* 1.3 75.3 - - - +
327N LEU* 1.3 60.6 + - - +
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Residues in contact with LEU 327 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258N VAL* 3.4 12.6 - - + -
262N SER* 3.2 11.4 + - - +
323N TRP 3.1 12.1 + - - +
324N LEU* 3.1 31.5 + - + +
326N THR* 1.3 75.7 - - - +
328N HIS* 1.3 65.1 + - - +
329N GLY 3.1 0.7 + - - -
330N GLY* 3.0 16.1 + - - -
332N ILE* 3.8 13.2 - - + +
338N MET* 3.2 35.2 - - + -
342N LEU* 3.7 24.7 - - + -
345N ILE* 4.5 2.9 - - + -
42O ILE* 4.8 3.6 - - - +
45O MET* 3.7 26.5 - - + +
46O LEU* 4.3 4.7 - - + -
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Residues in contact with HIS 328 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264N LYS* 2.7 28.4 + - - -
324N LEU 2.9 10.4 + - - +
325N ALA* 3.0 20.0 - - - +
326N THR 3.1 0.8 - - - -
327N LEU* 1.3 73.8 - - - +
329N GLY* 1.3 59.5 + - - +
45O MET* 3.7 23.3 - - - +
52O HIS* 5.7 0.6 + - - -
56O MET* 3.2 31.2 - - + +
1230O PSC 3.8 28.1 - - + +
13V LEU* 3.5 34.7 + - + +
14V ALA* 5.3 3.0 - - - -
17V LEU* 3.7 35.1 - - + +
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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
------------------------------------------------------------
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