Contacts of the helix formed by residues 301 - 322 (chain A) in PDB entry 2ZNN
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 301 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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300A LEU* 1.3 76.5 - - - +
302A LEU* 1.3 68.3 + - - +
303A ASN* 2.7 46.5 + - - +
304A ASP* 3.0 28.6 + - - +
305A GLN* 3.1 10.7 + - - +
392A LEU* 4.2 11.6 - - + +
393A ASN* 6.3 1.3 - - + -
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Residues in contact with LEU 302 (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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300A LEU 3.5 3.4 + - - +
301A ASP* 1.3 74.4 + - - +
303A ASN* 1.3 65.6 + - - +
305A GLN* 3.3 25.0 + - - +
306A VAL* 3.0 31.0 + - + +
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Residues in contact with ASN 303 (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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301A ASP* 2.7 23.3 + - - +
302A LEU* 1.3 80.3 - - - +
304A ASP* 1.3 55.9 + - - +
306A VAL* 3.4 8.5 + - - +
307A THR* 2.9 32.5 + - - +
392A LEU* 3.7 23.3 - - + +
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Residues in contact with ASP 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A LEU* 4.4 8.7 - - + +
301A ASP* 3.0 22.7 + - - +
303A ASN* 1.3 78.0 - - - +
305A GLN* 1.3 60.9 + - - +
307A THR* 3.7 4.8 + - - -
308A LEU* 2.8 38.0 + - - +
390A GLY 4.4 0.7 - - - +
391A LEU* 3.5 6.5 - - - +
392A LEU* 2.7 38.7 + - - +
393A ASN* 3.0 28.5 + - - +
397A ILE* 3.8 22.6 - - + +
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Residues in contact with GLN 305 (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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292A LYS* 6.4 0.4 - - - +
297A PHE* 3.3 58.6 - - + +
298A ALA* 3.6 14.1 - - - +
300A LEU* 3.1 21.7 - - + +
301A ASP 3.1 12.7 + - - +
302A LEU* 3.3 24.5 + - - +
304A ASP* 1.3 76.1 - - - +
306A VAL* 1.3 64.9 + - + +
308A LEU* 3.4 0.4 + - - -
309A LEU* 3.1 33.0 + - + +
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Residues in contact with VAL 306 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302A LEU* 3.0 18.7 + - + +
303A ASN* 3.5 10.8 - - - +
305A GLN* 1.3 77.6 - - + +
307A THR* 1.3 58.6 + - - +
309A LEU* 3.4 6.2 + - - +
310A LYS* 2.9 33.5 + - + +
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Residues in contact with THR 307 (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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303A ASN* 2.9 18.9 + - - +
304A ASP* 3.7 1.2 + - - -
306A VAL* 1.3 80.0 - - - +
308A LEU* 1.3 61.9 + - - +
310A LYS* 3.3 8.1 + - + -
311A TYR* 3.3 35.0 + - + +
388A ARG* 4.5 2.8 - - + +
389A PRO 3.0 29.4 - - - +
390A GLY* 4.8 6.5 + - - -
391A LEU* 3.4 27.1 - - + +
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Residues in contact with LEU 308 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297A PHE* 3.8 15.9 - - + -
300A LEU* 3.5 32.1 - - + -
304A ASP 2.8 19.7 + - - +
305A GLN 3.8 4.0 - - - +
307A THR* 1.3 74.2 - - - +
309A LEU* 1.3 58.8 + - - +
311A TYR* 4.0 1.0 - - - +
312A GLY* 3.1 25.5 + - - -
383A ILE* 3.5 27.2 - - + +
385A CYS 3.2 28.0 - - - +
388A ARG* 4.0 8.2 + - + -
391A LEU* 3.9 19.1 - - + -
397A ILE* 4.4 7.0 - - + -
400A MET* 3.8 15.9 - - + -
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Residues in contact with LEU 309 (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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284A VAL* 6.4 1.1 - - + -
287A LEU* 4.2 21.5 - - + +
288A THR* 3.9 35.7 - - + +
291A ALA* 4.2 10.5 - - + -
297A PHE* 3.9 19.7 - - + -
305A GLN* 3.1 23.1 + - + +
306A VAL* 3.9 5.4 - - - +
308A LEU* 1.3 73.7 - - - +
310A LYS* 1.3 65.3 + - - +
312A GLY* 5.0 0.2 - - - -
313A VAL* 2.9 44.8 + - + +
383A ILE* 4.4 16.6 - - + -
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Residues in contact with LYS 310 (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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306A VAL* 2.9 22.6 + - + +
307A THR* 3.5 9.4 - - + +
308A LEU 3.3 0.4 - - - -
309A LEU* 1.3 79.7 - - - +
311A TYR* 1.3 93.6 + - + +
313A VAL* 3.5 14.5 - - - +
314A TYR* 5.4 0.2 - - - -
462A GLU* 2.8 27.7 + - - -
463A ILE* 3.0 37.8 + - + +
465A ARG 2.7 28.9 + - - -
466A ASP* 4.5 1.8 - - - -
467A MET* 4.1 9.0 - - + +
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Residues in contact with TYR 311 (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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307A THR* 3.3 20.8 + - + +
310A LYS* 1.3 103.3 - - + +
312A GLY* 1.3 60.6 + - - +
313A VAL 3.7 0.2 - - - -
314A TYR* 4.8 1.8 + - - +
315A GLU* 3.7 12.6 + - - +
388A ARG* 3.4 39.1 + - + +
389A PRO* 3.6 50.6 - - + +
437A VAL* 5.5 2.4 - - - +
466A ASP 2.8 25.6 + - - -
467A MET* 3.3 45.2 + - + +
468A TYR* 4.0 20.3 + + - -
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Residues in contact with GLY 312 (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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308A LEU 3.1 17.4 + - - -
309A LEU 4.6 0.2 - - - -
311A TYR* 1.3 80.6 - - - +
313A VAL* 1.3 64.5 + - - +
314A TYR 3.4 0.9 - - - -
315A GLU* 3.1 4.8 + - - +
316A ALA* 2.9 24.9 + - - +
382A ILE* 3.8 10.4 - - - +
383A ILE* 5.1 8.3 - - - -
388A ARG* 4.0 15.0 - - - +
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Residues in contact with VAL 313 (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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284A VAL* 4.2 28.5 - - + +
287A LEU* 3.7 27.3 - - + +
288A THR* 5.8 0.2 - - - +
309A LEU* 2.9 39.5 + - + +
310A LYS 3.5 13.7 - - - +
312A GLY* 1.3 71.7 - - - +
314A TYR* 1.3 68.8 + - + +
316A ALA* 3.1 3.8 + - - +
317A ILE* 2.7 44.1 + - + +
463A ILE* 4.0 21.8 - - + -
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Residues in contact with TYR 314 (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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280A SER* 4.1 8.1 - - - -
311A TYR 4.8 1.9 + - - +
312A GLY 3.4 0.6 - - - -
313A VAL* 1.3 83.9 - - + +
315A GLU* 1.3 66.8 + - + +
317A ILE* 3.9 14.4 - - + -
318A PHE* 3.0 51.8 + + + -
437A VAL* 3.8 24.5 - - + -
440A HIS* 4.5 0.2 - + - -
460A LEU* 3.4 23.3 - - + +
463A ILE* 3.6 36.8 - - + -
464A TYR* 3.2 37.5 + + - -
467A MET* 4.5 4.7 - - + -
901A S44 2.7 37.9 + - + -
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Residues in contact with GLU 315 (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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311A TYR 3.7 10.1 - - - +
312A GLY 3.1 6.1 + - - +
314A TYR* 1.3 77.0 - - - +
316A ALA* 1.3 64.2 + - - +
319A ALA* 3.1 23.4 + - - +
382A ILE* 3.5 18.4 - - + +
388A ARG* 2.8 43.1 + - - -
430A MET* 4.5 8.0 - - - +
433A LEU* 3.6 21.2 - - + +
434A ARG* 3.2 35.1 + - - +
437A VAL* 3.6 21.5 - - + +
468A TYR* 4.1 2.9 + - - -
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Residues in contact with ALA 316 (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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287A LEU* 3.7 29.6 - - + -
312A GLY 2.9 13.6 + - - +
313A VAL* 3.3 8.1 - - - +
315A GLU* 1.3 77.4 - - - +
317A ILE* 1.3 61.9 + - - +
319A ALA* 3.1 4.4 + - - +
320A MET* 2.9 30.5 + - + +
379A VAL* 4.0 15.9 - - + +
382A ILE* 4.1 14.7 - - + +
383A ILE* 5.5 2.7 - - + -
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Residues in contact with ILE 317 (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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280A SER* 4.1 30.5 - - - +
283A THR* 3.4 37.7 - - + +
284A VAL* 5.1 2.5 - - + -
287A LEU* 4.2 0.9 - - + -
313A VAL* 2.7 32.4 + - + +
314A TYR* 3.6 22.2 - - + +
315A GLU 3.3 0.2 - - - -
316A ALA* 1.3 74.0 - - - +
318A PHE* 1.3 76.0 + - + +
320A MET* 3.5 6.9 + - - +
321A LEU* 2.9 39.0 + - + +
901A S44 5.2 4.7 - - + -
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Residues in contact with PHE 318 (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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314A TYR* 3.0 42.0 + + + +
317A ILE* 1.3 81.6 - - + +
319A ALA* 1.3 64.7 + - - +
321A LEU* 3.6 17.9 + - + +
322A SER* 3.2 16.1 + - - -
325A MET* 4.5 2.3 - - - +
358A LYS* 3.5 40.4 - - + -
361A PHE* 4.1 5.5 - - + -
433A LEU* 4.0 7.6 - - + -
436A LEU* 3.7 31.6 - - + -
437A VAL* 4.0 14.4 - - + -
440A HIS* 3.7 32.1 - + + -
901A S44 4.0 20.2 - + + -
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Residues in contact with ALA 319 (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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315A GLU 3.1 14.6 + - - +
316A ALA* 3.1 9.8 + - - +
318A PHE* 1.3 77.8 - - - +
320A MET* 1.3 61.0 + - + +
322A SER* 3.1 24.5 + - - -
323A SER* 4.3 2.1 + - - -
361A PHE* 4.3 9.0 - - - -
365A PHE* 4.0 13.6 - - + -
375A ILE* 5.6 3.6 - - + +
378A PHE* 4.0 18.6 - - + -
379A VAL* 5.1 3.1 - - + -
382A ILE* 4.2 4.3 - - + -
433A LEU* 3.8 17.0 - - + +
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Residues in contact with MET 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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214A TYR* 3.8 36.6 - - - +
218A PHE* 3.9 24.5 - - + -
220A MET 5.9 1.1 - - - +
283A THR* 4.0 17.0 - - + -
287A LEU* 3.8 26.5 - - + -
316A ALA* 2.9 26.2 + - + +
317A ILE* 4.1 2.9 - - - +
319A ALA* 1.3 71.0 - - - +
321A LEU* 1.3 66.0 + - - +
322A SER 3.1 2.0 - - - -
323A SER* 3.0 27.0 + - - -
324A VAL* 4.1 3.3 + - - +
375A ILE* 4.5 3.8 - - + -
379A VAL* 3.9 16.8 - - + -
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Residues in contact with LEU 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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317A ILE* 2.9 24.0 + - + +
318A PHE* 3.6 26.5 - - + +
320A MET* 1.3 76.8 - - - +
322A SER* 1.3 62.1 + - - +
324A VAL* 3.1 27.7 + - + +
325A MET* 3.2 27.1 - - + +
330A MET* 3.7 17.3 - - + -
358A LYS* 4.5 2.7 - - + -
901A S44 3.6 53.2 - - + +
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Residues in contact with SER 322 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A PHE 3.2 9.5 + - - -
319A ALA 3.1 15.3 + - - -
321A LEU* 1.3 79.5 - - - +
323A SER* 1.3 59.8 - - - +
325A MET* 3.0 19.4 + - - +
361A PHE* 3.8 11.1 - - - -
362A ALA* 3.5 23.0 - - - +
365A PHE* 3.8 11.2 - - - -
366A ASN* 3.0 40.3 + - - -
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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