Contacts of the helix formed by residues 324 - 347 (chain C) in PDB entry 2N70
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 324 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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122A SER* 5.5 5.9 - - - -
124A ASP* 4.8 5.5 - - - +
128A VAL* 3.2 31.8 - - - +
322C SER* 3.9 3.2 - - - -
323C SER* 1.3 94.7 + - - +
325C PRO* 1.3 68.8 - - - +
326C LEU* 3.2 3.8 + - - +
327C VAL* 3.4 22.1 + - + +
328C VAL* 3.3 24.1 + - - +
423D SER* 5.7 2.2 - - - -
424D ASP* 5.6 9.2 - - + +
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Residues in contact with PRO 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322C SER* 3.1 26.7 - - - +
323C SER 3.7 4.0 - - - +
324C ASP* 1.3 92.4 - - - +
326C LEU* 1.3 71.9 + - + +
328C VAL* 3.1 8.9 - - + +
329C ALA* 2.9 33.1 + - - +
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Residues in contact with LEU 326 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324C ASP* 3.2 1.2 - - - -
325C PRO* 1.3 95.9 - - + +
327C VAL* 1.3 60.3 + - - +
329C ALA* 3.7 3.7 - - - +
330C ALA* 2.8 33.0 + - - +
428D VAL* 3.7 35.2 - - + -
431D ASN* 5.8 0.2 - - - -
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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
----------------------------------------------------------
127A VAL* 6.4 0.4 - - + -
128A VAL* 4.4 9.2 - - + -
131A ASN* 3.5 37.2 - - + +
324C ASP* 3.4 29.7 + - + +
326C LEU* 1.3 76.1 - - - +
328C VAL* 1.3 58.5 + - - +
330C ALA* 3.0 2.1 + - - -
331C ASN* 2.8 25.6 + - - +
424D ASP* 4.5 12.1 - - + +
427D VAL* 4.5 7.6 - - + -
428D VAL* 3.6 28.7 - - + +
431D ASN* 3.3 15.9 - - - +
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Residues in contact with VAL 328 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ASP* 3.2 33.2 - - - +
127A VAL* 4.4 8.1 - - + -
128A VAL* 4.4 1.8 - - + -
322C SER* 5.1 6.3 - - - +
324C ASP* 3.3 23.8 + - - +
325C PRO* 3.1 19.3 - - + +
327C VAL* 1.3 74.9 - - - +
329C ALA* 1.3 71.1 + - + +
331C ASN* 2.4 48.0 + - - +
332C ILE* 3.1 6.3 + - + +
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Residues in contact with ALA 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 PRO 2.9 18.3 + - - +
326C LEU* 3.9 4.9 - - - +
328C VAL* 1.3 85.1 - - + +
330C ALA* 1.3 58.8 + - - +
332C ILE* 4.1 18.1 + - - +
333C ILE* 4.0 10.6 + - - +
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Residues in contact with ALA 330 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326C LEU 2.8 20.3 + - - +
328C VAL 2.9 0.2 - - - -
329C ALA* 1.3 77.1 - - - +
331C ASN* 1.3 60.2 + - - +
333C ILE* 2.8 26.5 - - - +
334C GLY* 3.1 6.9 + - - -
431D ASN* 3.1 44.2 + - + +
432D ILE* 4.9 2.2 - - - +
435D ILE* 4.1 6.0 - - + +
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Residues in contact with ASN 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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127A VAL* 3.4 23.0 - - + +
131A ASN* 4.5 14.6 - - + -
227B VAL* 3.1 28.8 - - - +
231B ASN* 3.9 6.6 + - - +
327C VAL* 2.8 9.7 + - + +
328C VAL* 2.4 40.1 + - - +
330C ALA* 1.3 71.7 - - - +
332C ILE* 1.3 74.4 + - - +
334C GLY* 2.8 2.5 + - - +
335C ILE* 2.8 36.8 + - + +
431D ASN* 4.8 3.8 - - - +
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Residues in contact with ILE 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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227B VAL* 4.6 17.7 - - + -
328C VAL* 3.4 15.0 - - + +
329C ALA* 4.2 14.4 - - - +
331C ASN* 1.3 97.4 - - - +
333C ILE* 1.3 60.7 + - - +
335C ILE* 3.6 5.4 + - - +
336C LEU* 3.2 35.8 + - + +
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Residues in contact with ILE 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 ALA 4.0 4.9 + - - +
330C ALA* 2.8 35.9 - - - +
332C ILE* 1.3 77.0 - - - +
334C GLY* 1.3 60.3 + - - +
336C LEU* 3.8 9.1 - - + +
337C HIS* 2.8 33.9 + - + +
435D ILE* 3.4 44.4 - - + -
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Residues in contact with GLY 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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138A LEU* 5.6 4.9 - - - -
330C ALA 3.1 12.7 + - - -
331C ASN* 2.8 7.7 + - - -
333C ILE* 1.3 80.3 - - - +
335C ILE* 1.3 62.8 + - - +
337C HIS* 3.2 27.2 - - - +
338C LEU* 3.2 10.2 + - - +
431D ASN* 5.5 2.0 - - - -
435D ILE* 5.1 5.6 - - - -
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Residues in contact with ILE 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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227B VAL* 3.5 28.3 - - + +
230B ALA* 3.3 32.8 - - + +
231B ASN* 3.5 25.8 - - - +
233B ILE* 6.0 0.4 - - + -
234B GLY* 5.3 4.9 - - - +
331C ASN* 2.8 38.5 + - - +
332C ILE* 3.9 4.7 - - - +
334C GLY* 1.3 72.8 - - - +
336C LEU* 1.3 69.5 + - + +
337C HIS 2.9 1.4 + - - -
338C LEU* 2.9 20.0 + - + +
339C ILE* 3.1 23.6 + - + +
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Residues in contact with LEU 336 (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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332C ILE* 3.2 33.4 + - + +
333C ILE* 3.8 8.1 - - + +
335C ILE* 1.3 80.0 - - + +
337C HIS* 1.3 64.1 + - - +
339C ILE* 3.3 22.7 + - + +
340C LEU* 3.0 22.1 + - - +
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Residues in contact with HIS 337 (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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137A HIS* 3.5 10.8 + + - -
138A LEU* 2.8 43.5 - - + +
333C ILE* 2.8 19.8 + - + +
334C GLY* 3.2 17.5 - - - +
335C ILE 2.9 0.6 + - - -
336C LEU* 1.3 77.3 - - - +
338C LEU* 1.3 77.8 + - + +
340C LEU* 2.8 7.3 + - - +
341C TRP* 2.8 44.5 + + + -
437D HIS* 4.1 1.1 - - - -
438D LEU* 2.9 53.3 - - + +
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Residues in contact with LEU 338 (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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134A GLY* 5.6 5.6 - - - -
137A HIS* 2.8 42.8 - - + +
234B GLY* 3.7 36.8 - - - +
235B ILE* 6.1 0.4 - - + -
237B HIS* 3.0 35.4 - - + +
334C GLY 3.2 5.8 + - - +
335C ILE* 2.9 15.9 + - + +
337C HIS* 1.3 91.1 - - + +
339C ILE* 1.3 66.0 + - + +
341C TRP* 3.8 2.9 - - + -
342C ILE* 2.8 30.3 + - - +
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Residues in contact with ILE 339 (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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230B ALA* 5.6 3.8 - - + -
233B ILE* 5.6 11.7 - - + -
335C ILE* 3.1 29.6 + - + +
336C LEU* 3.5 25.8 - - + +
338C LEU* 1.3 79.8 - - + +
340C LEU* 1.3 57.8 + - + +
342C ILE* 3.3 9.0 - - + +
343C LEU* 2.9 35.4 + - + +
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Residues in contact with LEU 340 (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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336C LEU 3.0 10.8 + - - +
337C HIS* 2.8 11.5 + - - +
339C ILE* 1.3 76.4 - - - +
341C TRP* 1.3 70.8 + - - +
342C ILE 3.1 1.3 - - - -
343C LEU* 2.9 11.2 + - + +
344C ASP* 2.8 23.7 + - + +
351C ILE* 6.6 0.2 - - + -
438D LEU* 4.3 15.0 - - + -
441D TRP* 3.7 31.9 - - + -
442D ILE* 5.9 8.5 - - + -
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Residues in contact with TRP 341 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141A TRP* 2.9 60.8 - + - -
145A ARG* 5.1 0.2 - - - -
237B HIS* 3.2 33.3 + + - -
241B TRP* 3.8 15.9 - + - -
337C HIS* 2.8 36.3 + + + +
338C LEU* 3.8 12.8 - - + -
340C LEU* 1.3 80.9 - - - +
342C ILE* 1.3 68.2 + - - +
344C ASP* 3.4 4.6 + - - +
345C ARG* 3.2 42.2 + - + -
438D LEU* 4.1 8.1 - - + -
441D TRP* 3.3 35.4 - + + -
445D ARG* 4.7 5.4 - - - -
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Residues in contact with ILE 342 (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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237B HIS* 3.0 50.3 - - + +
240B LEU* 5.5 10.1 - - + -
338C LEU 2.8 25.9 + - - +
339C ILE* 3.3 14.8 - - - +
341C TRP* 1.3 75.2 - - + +
343C LEU* 1.3 81.2 + - + +
344C ASP 3.0 2.5 + - - -
345C ARG* 3.1 16.8 + - + +
346C LEU* 3.1 30.7 + - + +
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Residues in contact with LEU 343 (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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339C ILE* 2.9 22.9 - - + +
340C LEU* 2.9 11.5 + - + +
342C ILE* 1.3 84.2 - - + +
344C ASP* 1.3 59.0 + - - +
346C LEU* 4.8 1.8 - - - -
347C PHE* 2.8 52.8 + - + +
350C SER* 6.1 0.4 - - - -
351C ILE* 4.0 21.8 - - + -
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Residues in contact with ASP 344 (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 LEU* 2.8 10.6 + - + +
341C TRP* 3.6 6.1 - - - +
343C LEU* 1.3 75.1 - - + +
345C ARG* 1.3 66.2 + - - +
346C LEU 3.0 2.0 - - - -
348C PHE* 2.5 39.3 + - - -
351C ILE* 3.3 31.6 - - + +
441D TRP* 3.3 22.6 - - + -
445D ARG* 2.7 51.8 + - - -
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Residues in contact with ARG 345 (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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141A TRP* 5.1 0.4 - - - -
241B TRP* 2.8 46.2 + - - +
244B ASP* 2.9 37.0 + - - +
245B ARG* 4.9 14.6 - - - +
341C TRP* 3.2 34.0 + - + +
342C ILE* 3.1 13.5 + - + +
344C ASP* 1.3 85.5 + - - +
346C LEU* 1.3 72.6 + - + +
348C PHE* 4.1 9.3 + - - +
445D ARG* 5.5 0.9 - - - +
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Residues in contact with LEU 346 (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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240B LEU* 5.7 11.0 - - + -
342C ILE* 3.1 29.9 + - + +
343C LEU* 4.6 0.9 - - - -
344C ASP 3.0 0.4 - - - -
345C ARG* 1.3 94.1 - - + +
347C PHE* 1.3 80.5 + - + +
348C PHE* 3.2 7.2 + - - +
349C LYS* 4.9 0.9 + - - +
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Residues in contact with PHE 347 (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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343C LEU* 2.8 48.6 + - + +
344C ASP 3.2 2.7 - - - -
346C LEU* 1.3 91.0 - - + +
348C PHE* 1.3 62.8 + - - +
349C LYS* 2.7 10.2 + - - +
350C SER* 2.7 36.2 + - - +
351C ILE* 3.2 10.1 + - + +
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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
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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