Contacts of the helix formed by residues 319 - 338 (chain A) in PDB entry 7EHI
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 319 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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278A ASP* 3.0 38.2 + - - +
279A TRP* 3.9 9.7 - - - +
316A ASN* 3.1 25.5 + - - +
318A SER* 1.3 79.3 + - - +
320A PRO* 1.3 66.8 - - - +
321A GLU* 2.8 26.9 + - - +
322A VAL* 2.9 29.1 + - + +
323A VAL* 2.9 12.2 + - - +
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Residues in contact with PRO 320 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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318A SER 3.5 7.4 - - - +
319A ASN* 1.3 90.3 - - - +
321A GLU* 1.3 56.3 + - + +
323A VAL* 3.6 11.0 - - + +
324A ASP* 3.0 37.2 + - - +
357A LYS* 5.9 4.9 - - - +
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Residues in contact with GLU 321 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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275A PRO 4.2 7.6 - - - +
279A TRP* 3.0 36.0 + - + +
319A ASN* 2.8 14.8 + - - +
320A PRO* 1.3 78.4 - - + +
322A VAL* 1.4 58.4 + - - +
324A ASP* 3.5 7.2 + - - +
325A TYR* 3.0 28.1 + - - +
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Residues in contact with VAL 322 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
279A TRP* 3.5 48.0 - - + +
315A LEU* 4.4 13.7 - - + -
316A ASN 3.3 29.6 - - - +
317A THR* 4.0 9.9 - - + -
319A ASN* 2.9 9.0 + - + +
321A GLU* 1.4 75.6 - - - +
323A VAL* 1.3 66.5 + - - +
325A TYR* 3.2 6.7 + - + +
326A LEU* 2.9 46.6 + - + +
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Residues in contact with VAL 323 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317A THR 3.1 27.1 - - - +
318A SER 4.7 2.5 - - - +
319A ASN 2.9 18.2 + - - +
320A PRO* 3.6 11.2 - - + +
322A VAL* 1.3 76.7 - - - +
324A ASP* 1.3 63.2 + - - +
326A LEU* 3.4 1.0 + - - +
327A LEU* 2.9 44.0 + - + +
353A HIS* 5.2 7.0 - - + +
354A PHE* 4.1 20.9 - - + -
357A LYS* 3.8 37.2 - - + +
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Residues in contact with ASP 324 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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320A PRO* 3.0 24.1 + - - +
321A GLU* 3.8 7.2 - - - +
322A VAL 3.2 0.2 - - - -
323A VAL* 1.3 81.1 - - - +
325A TYR* 1.3 63.0 + - - +
327A LEU* 3.9 8.2 - - - +
328A ASN* 3.0 38.3 + - - +
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Residues in contact with TYR 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A GLN 5.7 0.7 + - - -
220A ASP* 5.6 1.7 + - - -
221A TYR* 3.3 32.6 + + - +
222A MET* 6.0 3.4 - - + -
257A ILE* 4.2 6.0 - - + +
263A GLN* 3.4 32.4 + - - -
279A TRP* 3.7 32.1 - + + -
315A LEU* 5.5 3.6 - - + -
321A GLU 3.0 18.4 + - - +
322A VAL* 3.5 5.4 - - + +
324A ASP* 1.3 78.3 - - - +
326A LEU* 1.3 76.9 + - + +
328A ASN* 3.3 6.5 + - - +
329A ILE* 3.1 47.3 + - + +
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Residues in contact with LEU 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221A TYR* 5.0 2.7 - - + -
254A PHE* 3.8 44.9 - - + +
315A LEU* 4.4 12.6 - - + -
317A THR* 3.8 20.4 - - + -
322A VAL* 2.9 36.8 + - + +
325A TYR* 1.3 93.0 - - + +
327A LEU* 1.3 62.7 + - - +
329A ILE* 3.2 9.1 + - + +
330A ALA* 2.9 28.4 + - - +
354A PHE* 3.7 26.5 - - + -
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Residues in contact with LEU 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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323A VAL* 2.9 39.4 + - + +
324A ASP* 4.0 8.5 - - - +
326A LEU* 1.3 76.3 - - - +
328A ASN* 1.3 59.8 + - - +
330A ALA* 3.3 4.1 + - + +
331A THR* 2.9 36.2 + - + +
354A PHE* 4.3 9.0 - - + -
357A LYS* 4.0 16.6 - - + +
358A PHE* 3.6 43.3 - - + +
361A ALA* 4.3 13.9 - - + -
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Residues in contact with ASN 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A MET* 5.3 2.0 - - - +
324A ASP* 3.0 30.7 + - - +
325A TYR* 3.6 6.3 - - - +
327A LEU* 1.3 78.8 - - - +
329A ILE* 1.3 57.2 + - + +
331A THR* 3.2 8.8 + - - -
332A TYR* 2.9 30.7 + - - +
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Residues in contact with ILE 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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208A PHE* 5.0 1.3 - - + -
221A TYR* 3.5 40.2 - - + -
222A MET* 4.0 21.8 - - + -
254A PHE* 4.1 16.6 - - + -
325A TYR* 3.1 52.1 + - + +
326A LEU* 3.5 11.7 - - + +
328A ASN* 1.3 76.9 - - + +
330A ALA* 1.3 63.7 + - - +
332A TYR* 3.2 9.5 + - - +
333A TRP* 3.2 35.4 + - + +
342A TRP* 5.0 4.0 - - + -
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Residues in contact with ALA 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254A PHE* 4.3 4.3 - - + -
326A LEU 2.9 16.5 + - - +
327A LEU* 3.3 6.5 + - - +
329A ILE* 1.3 79.0 - - - +
331A THR* 1.3 59.9 + - - +
334A VAL* 3.3 15.6 + - - +
342A TRP* 3.2 30.4 + - - +
358A PHE* 3.5 33.9 - - + -
362A MET* 3.8 13.1 - - + +
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Residues in contact with THR 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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327A LEU* 2.9 19.9 + - + +
328A ASN* 3.2 15.1 + - - -
330A ALA* 1.3 76.1 - - - +
332A TYR* 1.3 60.0 + - - +
334A VAL* 4.0 0.2 - - - +
335A LYS* 2.9 42.3 + - - +
361A ALA* 4.3 13.9 - - + -
362A MET* 3.4 21.5 - - + -
365A LEU* 3.7 22.2 - - + -
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Residues in contact with TYR 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222A MET* 3.5 43.6 + - + -
231A ALA* 5.0 5.2 - - - +
328A ASN 2.9 18.6 + - - +
329A ILE 3.2 4.0 + - - +
331A THR* 1.3 77.7 + - - +
333A TRP* 1.3 91.8 + + - +
335A LYS* 4.8 2.7 - - - -
336A GLU* 2.9 51.7 + - + +
337A PHE* 3.5 33.1 - + - -
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Residues in contact with TRP 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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208A PHE* 3.2 43.1 - + - -
221A TYR 2.9 24.8 + - - -
222A MET* 3.8 17.2 - - - +
223A THR* 4.7 0.2 - - - -
224A VAL* 3.8 27.8 - - + -
231A ALA* 6.0 1.1 - - + -
234A PHE* 4.0 24.7 - + - -
250A LEU* 4.5 2.5 - - + -
329A ILE* 3.2 29.7 + - + +
330A ALA 3.9 0.2 + - - -
331A THR 3.4 0.2 - - - -
332A TYR* 1.3 95.5 - + - +
334A VAL* 1.3 58.8 + - - +
337A PHE* 3.1 64.4 + + - +
338A ASP 3.6 1.2 + - - -
339A ILE* 3.9 13.9 - - + +
342A TRP* 3.7 22.7 - + + -
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Residues in contact with VAL 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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330A ALA 3.3 18.8 + - - +
331A THR 3.4 3.7 + - - +
332A TYR 3.2 0.2 - - - -
333A TRP* 1.3 74.6 - - - +
335A LYS* 1.3 61.5 + - - +
338A ASP* 2.9 27.2 + - - -
339A ILE* 3.8 13.2 - - + +
342A TRP* 3.7 16.4 - - - +
362A MET* 4.0 7.0 - - - -
365A LEU* 4.0 20.2 - - + -
366A LYS* 3.7 37.6 - - + -
369A PHE* 3.7 22.4 - - + -
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Residues in contact with LYS 335 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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331A THR* 2.9 23.6 + - - +
332A TYR* 4.2 2.0 - - - +
334A VAL* 1.3 80.6 - - - +
336A GLU* 1.3 74.7 + - + +
338A ASP* 4.5 1.9 + - - +
365A LEU* 3.5 33.6 - - + +
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Residues in contact with GLU 336 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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235A LYS* 2.9 27.5 + - - -
332A TYR* 2.9 41.3 + - + +
335A LYS* 1.3 91.6 - - + +
337A PHE* 1.4 77.2 + - + +
338A ASP* 5.6 0.2 - - - -
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Residues in contact with PHE 337 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231A ALA* 3.4 40.4 - - + -
234A PHE* 3.6 32.1 - + + -
235A LYS* 3.8 33.7 + - + +
238A VAL* 3.3 21.0 - - + +
239A GLN* 6.1 0.2 - - - +
332A TYR* 3.5 31.0 - + - -
333A TRP* 3.1 47.5 + + - +
336A GLU* 1.4 89.9 - - + +
338A ASP* 1.3 71.7 + - - +
339A ILE* 3.3 1.7 + - + -
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Residues in contact with ASP 338 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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235A LYS* 5.3 4.3 - - - +
238A VAL* 4.4 0.9 - - + -
242A HIS* 3.2 36.3 + - + +
334A VAL 2.9 18.1 + - - -
335A LYS 4.5 1.5 - - - +
336A GLU 3.8 0.6 - - - -
337A PHE* 1.3 80.1 - - - +
339A ILE* 1.3 68.3 + - - +
366A LYS* 2.6 32.8 + - - +
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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
------------------------------------------------------------
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