Contacts of the helix formed by residues 313 - 334 (chain A) in PDB entry 1HS6
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 HIS 313 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A ILE* 4.0 17.3 - - + +
308A ASN* 3.4 14.2 - - + +
310A THR* 3.0 28.7 + - - +
312A ASP* 1.3 84.0 - - + +
314A PHE* 1.3 62.9 + - - +
315A TRP* 3.0 9.6 - - - +
316A LEU* 2.9 31.7 + - + +
366A VAL* 3.9 17.9 - - + +
419A ILE 4.5 2.7 - - - +
420A THR* 3.9 13.2 - - + -
421A THR* 2.7 45.1 + - - +
422A ASP 5.2 0.7 - - - -
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Residues in contact with PHE 314 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLN* 3.7 19.5 - - - -
308A ASN* 3.2 20.9 - - - +
311A TRP* 3.2 34.3 + + + +
312A ASP 3.3 1.2 - - - -
313A HIS* 1.3 77.3 - - - +
315A TRP* 1.3 63.3 + - - +
317A ASN* 3.0 15.1 + - + -
318A GLU* 3.2 47.8 + - + +
367A VAL* 6.1 1.1 - - + -
378A TYR* 4.1 20.6 - + - -
382A PRO* 3.6 29.4 - - + -
383A TYR* 4.3 0.7 - + - -
901A BES 3.8 21.3 - + - -
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Residues in contact with TRP 315 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A HIS* 2.9 9.9 + - - -
314A PHE* 1.3 81.0 - - - +
316A LEU* 1.3 82.1 + - + +
319A GLY* 2.7 28.9 + - - +
320A HIS* 4.1 14.1 - + - -
365A LEU* 3.4 49.0 + - + +
366A VAL* 3.8 10.0 - - + +
382A PRO* 3.7 25.3 - - + +
386A GLY* 3.8 24.9 - - - -
389A LEU* 3.8 24.7 - - + -
390A LEU* 4.5 5.8 - - + -
421A THR* 2.9 31.9 + - + -
424A TRP* 3.9 31.2 - + - -
448A LEU* 4.5 2.0 - - + -
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Residues in contact with LEU 316 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A THR* 4.8 2.3 - - - -
306A VAL* 6.4 0.2 - - + -
308A ASN* 4.7 7.6 - - + +
313A HIS* 2.9 17.2 + - + +
315A TRP* 1.3 113.4 - - + +
317A ASN* 1.3 66.6 + - - +
320A HIS* 2.9 36.0 + - + +
410A TYR* 4.2 9.3 + - - +
419A ILE* 3.8 26.9 - - + +
420A THR* 3.5 31.9 - - - +
421A THR* 3.7 3.4 - - - +
424A TRP* 3.7 25.1 - - + -
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Residues in contact with ASN 317 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLN* 4.5 9.7 - - - +
200A TYR* 3.0 28.7 + - - -
271A GLU* 4.7 5.3 + - - -
299A HIS* 3.9 8.1 - - + -
302A THR 3.6 6.0 - - - +
303A GLY* 3.7 20.4 - - - +
306A VAL 4.1 1.0 - - - +
307A THR* 3.8 1.0 - - - -
308A ASN* 2.9 45.1 + - - +
313A HIS 4.2 0.2 + - - -
314A PHE* 3.0 15.5 + - + +
316A LEU* 1.3 83.8 - - - +
318A GLU* 1.3 59.4 + - + +
320A HIS* 4.4 0.2 - - - +
321A THR* 2.7 30.3 + - - -
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Residues in contact with GLU 318 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLN* 4.5 0.7 + - - -
271A GLU* 4.4 0.7 - - - +
295A HIS* 3.0 5.5 + - - -
299A HIS* 3.1 10.2 + - - -
314A PHE* 3.2 45.5 + - + +
317A ASN* 1.3 78.7 - - - +
319A GLY* 1.3 65.2 + - - +
321A THR* 3.3 1.8 + - - -
322A VAL* 2.9 29.7 + - - +
382A PRO* 4.5 2.7 - - + -
383A TYR* 3.1 40.8 - - + +
701A ZN 1.9 38.4 - - - -
901A BES 3.4 16.5 + - - -
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Residues in contact with GLY 319 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A TRP* 2.7 21.8 + - - -
318A GLU* 1.3 72.4 - - - +
320A HIS* 1.3 60.6 + - - -
322A VAL* 3.3 2.6 + - - +
323A TYR* 3.0 22.2 + - - +
382A PRO 3.7 14.8 + - - -
383A TYR 3.9 3.6 - - - -
386A GLY 4.0 4.0 - - - -
387A PHE* 3.9 18.1 - - - -
390A LEU* 3.6 7.8 - - - +
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Residues in contact with HIS 320 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A THR* 3.5 22.7 - - + -
315A TRP* 4.1 13.8 + + - -
316A LEU* 2.9 42.9 + - + +
318A GLU 3.4 0.4 - - - -
319A GLY* 1.3 73.6 - - - +
321A THR* 1.3 58.7 + - - +
323A TYR* 3.2 3.3 + - - +
324A LEU* 2.8 32.6 + - - +
390A LEU* 3.5 23.9 - - + +
403A PHE* 5.8 0.4 - + - -
406A PHE* 5.0 3.8 - + - -
407A LEU* 4.6 16.7 - - + +
410A TYR* 4.0 20.5 + + - -
424A TRP* 3.0 39.5 + + - -
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Residues in contact with THR 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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295A HIS* 3.0 49.6 - - + +
298A SER* 3.6 8.5 - - - -
299A HIS* 3.0 14.8 + - + -
302A THR* 2.8 28.4 + - - -
317A ASN 2.7 22.2 + - - -
318A GLU 3.3 4.0 + - - -
319A GLY 3.2 0.6 - - - -
320A HIS* 1.3 75.5 - - - +
322A VAL* 1.3 59.6 + - - +
324A LEU* 3.2 1.3 + - - +
325A GLU* 2.8 30.9 + - - +
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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
----------------------------------------------------------
295A HIS* 3.9 9.9 - - + -
318A GLU 2.9 20.1 + - - +
319A GLY 3.7 4.5 - - - +
321A THR* 1.3 75.5 - - - +
323A TYR* 1.3 63.7 + - - +
325A GLU* 3.6 13.2 - - - +
326A ARG* 2.9 64.5 + - - +
383A TYR* 3.8 34.8 - - + +
384A GLU* 4.4 2.7 - - - +
387A PHE* 3.7 15.7 - - + -
901A BES 5.2 1.3 - - + -
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Residues in contact with TYR 323 (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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319A GLY 3.0 14.8 + - - +
320A HIS 3.4 7.6 - - - +
321A THR 3.1 0.2 - - - -
322A VAL* 1.3 80.0 - - - +
324A LEU* 1.3 61.9 + - - +
326A ARG* 3.3 2.6 + - - +
327A HIS* 3.1 48.9 + + - -
338A ARG* 4.4 4.8 + - - -
387A PHE* 3.6 23.7 - + + -
390A LEU* 3.7 43.7 - - + -
391A PHE* 4.2 3.6 - + - -
394A GLU* 2.6 30.6 + - - +
400A PRO* 4.4 1.6 - - - +
403A PHE* 3.4 27.3 - + - +
404A LEU* 4.0 4.4 - - + +
407A LEU* 3.6 31.6 - - + -
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Residues in contact with LEU 324 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A LEU* 4.2 28.4 - - + +
248A GLY* 5.8 3.1 - - - -
298A SER* 3.3 29.8 - - - +
301A TRP* 4.9 8.5 - - + -
302A THR* 3.6 36.6 - - + +
320A HIS 2.8 13.7 + - - +
321A THR 3.8 0.2 - - - +
323A TYR* 1.3 77.3 - - + +
325A GLU* 1.3 63.5 + - - +
327A HIS* 2.8 5.8 + - - +
328A ILE* 2.8 25.7 + - + +
404A LEU* 4.3 10.3 - - + -
407A LEU* 3.7 35.0 - - + -
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Residues in contact with GLU 325 (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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291A ASN* 2.9 48.6 + - + +
294A ALA* 4.1 8.0 - - + +
295A HIS* 2.9 37.8 + - + +
298A SER* 3.6 7.8 + - - -
321A THR 2.8 20.0 + - - +
322A VAL* 3.3 17.6 - - - +
324A LEU* 1.3 72.6 - - - +
326A ARG* 1.3 76.4 + - - +
328A ILE* 3.2 6.0 + - - +
329A CYS* 3.2 24.5 + - - -
901A BES 3.8 4.3 - - - +
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Residues in contact with ARG 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322A VAL* 2.9 28.3 + - + +
323A TYR 4.0 3.1 - - - +
325A GLU* 1.3 92.7 + - + +
327A HIS* 1.3 60.0 + - - +
329A CYS* 3.8 6.9 - - + +
330A GLY 2.9 22.2 + - - -
338A ARG* 3.4 29.6 - - + +
341A ASN* 3.4 37.3 + - + +
342A ALA* 3.9 12.2 - - - +
345A GLY* 3.8 5.3 - - - -
384A GLU* 2.8 41.6 + - - -
387A PHE* 3.3 43.1 - - + -
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Residues in contact with HIS 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
247A LEU* 3.9 16.6 - - + -
323A TYR* 3.1 58.7 + + - -
324A LEU* 2.8 9.9 + - - +
326A ARG* 1.3 74.3 - - - +
328A ILE* 1.3 68.6 + - - +
330A GLY 3.7 0.2 - - - -
331A ARG* 2.8 38.5 + - - +
335A GLU* 5.3 1.1 + - - -
338A ARG* 3.3 33.7 + - - +
400A PRO* 3.6 14.6 - - + +
404A LEU* 3.5 33.2 - - + +
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Residues in contact with ILE 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A MET* 3.9 38.4 - - + +
243A ILE* 4.0 28.8 - - + +
244A ALA* 4.0 20.6 - - + +
247A LEU* 4.2 8.1 - - + -
294A ALA* 3.6 24.7 - - + +
297A ILE* 4.5 2.7 - - + -
298A SER* 3.3 26.5 - - - +
324A LEU* 2.8 13.5 + - + +
325A GLU* 3.5 6.5 - - - +
327A HIS* 1.3 77.0 - - - +
329A CYS* 1.4 51.6 + - - +
331A ARG* 3.0 5.9 + - - +
332A LEU* 2.8 33.4 + - + +
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Residues in contact with CYS 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240A MET* 4.8 4.3 - - - -
290A SER* 5.7 0.2 - - - -
291A ASN* 4.1 33.2 - - - -
294A ALA* 4.1 10.1 - - - -
325A GLU* 3.2 18.1 + - - +
326A ARG* 3.9 6.7 - - - +
328A ILE* 1.4 74.6 - - - +
330A GLY* 1.3 58.0 + - - +
332A LEU* 4.3 2.0 - - - +
333A PHE* 2.7 54.1 + - + +
337A PHE* 4.1 22.2 - - + -
338A ARG* 5.9 1.1 - - - -
341A ASN* 4.5 7.2 - - - +
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Residues in contact with GLY 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326A ARG 2.9 18.7 + - - -
327A HIS 3.2 2.0 + - - -
329A CYS* 1.3 76.3 - - - +
331A ARG* 1.3 58.6 + - - +
334A GLY* 2.7 45.4 + - - -
335A GLU* 3.7 4.0 + - - -
338A ARG* 3.9 15.2 - - - +
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Residues in contact with ARG 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243A ILE* 3.9 25.4 - - + +
246A ASP* 3.9 11.1 + - - +
247A LEU* 3.3 35.3 - - - +
327A HIS* 2.8 28.7 + - - +
328A ILE 3.0 9.6 + - - +
330A GLY* 1.3 81.7 - - - +
332A LEU* 1.3 63.0 + - - +
334A GLY 4.6 0.7 + - - -
404A LEU* 4.2 14.5 - - - +
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Residues in contact with LEU 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236A GLU* 4.8 6.7 - - + +
239A SER* 4.1 19.7 - - - +
240A MET* 3.8 41.1 - - + -
243A ILE* 3.4 24.7 - - + -
328A ILE 2.8 16.0 + - - +
329A CYS 3.2 0.4 + - - -
331A ARG* 1.3 78.9 - - - +
333A PHE* 1.3 92.3 + - + +
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Residues in contact with PHE 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236A GLU* 3.6 29.2 - - - -
240A MET* 5.1 0.4 - - + -
287A LYS 6.1 0.2 - - - -
290A SER* 4.8 10.1 - - - -
329A CYS* 2.7 34.0 + - + +
332A LEU* 1.3 103.9 - - + +
334A GLY* 1.3 59.1 + - - +
337A PHE* 3.6 37.5 - + + +
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Residues in contact with GLY 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A GLY* 2.7 25.3 + - - -
331A ARG 4.5 0.6 + - - -
332A LEU 3.8 0.6 - - - -
333A PHE* 1.3 76.0 - - - +
335A GLU* 1.3 58.4 + - - -
336A LYS* 3.1 4.5 - - - -
337A PHE* 2.8 27.8 + - - +
338A ARG 3.1 4.9 + - - -
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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) + - + + + + + -
------------------------------------------------------------
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