Contacts of the helix formed by residues 294 - 314 (chain A) in PDB entry 6WCZ
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 THR 294 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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280A LYS* 5.7 2.7 - - - +
293A LEU* 1.3 92.7 + - + +
295A LYS* 1.3 70.4 + - - +
296A GLY 3.2 1.1 - - - -
297A VAL* 3.5 6.2 - - + +
298A ASP* 3.0 39.1 + - - +
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Residues in contact with LYS 295 (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 ASP 4.7 7.7 + - - -
292A PRO* 4.4 30.6 - - + +
293A LEU 5.2 0.2 - - - +
294A THR* 1.3 86.8 + - - +
296A GLY* 1.3 60.0 + - - +
299A LEU* 2.6 44.2 + - + +
300A ARG* 3.8 6.5 - - - +
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Residues in contact with GLY 296 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A LEU* 4.0 17.8 - - - +
276A LEU* 4.5 1.1 - - - +
293A LEU 4.5 1.4 - - - +
294A THR 3.2 3.2 - - - +
295A LYS* 1.3 82.0 - - - +
297A VAL* 1.3 59.1 + - - +
300A ARG* 3.0 61.0 + - - +
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Residues in contact with VAL 297 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A LEU* 5.3 0.8 - - - +
276A LEU* 3.5 33.6 - - + +
277A LYS* 5.5 0.7 - - - +
279A LEU* 4.5 15.0 - - + -
280A LYS* 3.4 49.8 - - + +
293A LEU 3.2 24.2 + - - +
294A THR* 3.5 8.7 - - - +
296A GLY* 1.3 75.9 - - - +
298A ASP* 1.3 54.3 + - - +
301A ASN* 2.5 41.1 + - + +
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Residues in contact with ASP 298 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280A LYS* 2.9 34.3 + - - -
294A THR* 3.0 20.8 + - - +
297A VAL* 1.3 82.9 - - - +
299A LEU* 1.3 60.5 + - - +
300A ARG 3.3 0.4 - - - -
301A ASN* 3.9 12.4 + - - +
302A ALA* 2.9 29.5 + - - +
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Residues in contact with LEU 299 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A LYS* 5.0 3.6 - - - +
295A LYS* 2.6 30.2 + - + +
298A ASP* 1.3 76.4 - - - +
300A ARG* 1.3 79.0 + - + +
302A ALA* 3.3 5.6 + - + +
303A GLN* 3.0 33.6 + - + +
21B ALA* 5.5 10.3 - - + -
24B PHE* 5.4 20.9 - - + -
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Residues in contact with ARG 300 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A LEU* 3.9 22.6 + - - +
217A SER* 4.7 5.3 + - - +
218A LYS* 3.1 61.9 - - + +
221A LEU* 4.0 14.8 - - + -
276A LEU* 4.8 9.6 - - + -
292A PRO* 6.2 0.6 - - - +
295A LYS* 3.8 7.8 - - - +
296A GLY* 3.0 42.2 + - - +
299A LEU* 1.3 92.1 - - - +
301A ASN* 1.3 64.6 + - - +
303A GLN* 4.1 4.9 - - - +
304A VAL* 3.0 31.3 + - - +
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Residues in contact with ASN 301 (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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273A ARG* 4.3 14.9 + - - +
276A LEU* 4.2 14.6 + - + +
277A LYS* 5.7 10.2 - - - +
280A LYS* 6.0 1.0 - - - +
297A VAL* 2.5 29.8 + - - +
298A ASP* 3.9 14.0 + - - +
300A ARG* 1.3 78.6 - - - +
302A ALA* 1.3 51.9 + - - +
304A VAL* 3.5 8.4 - - - +
305A THR* 2.3 48.8 + - - -
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Residues in contact with ALA 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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298A ASP 2.9 21.2 + - - +
299A LEU* 3.6 7.2 - - + +
301A ASN* 1.3 75.2 - - - +
303A GLN* 1.3 59.7 + - - +
305A THR* 3.1 6.8 + - - -
306A GLU* 3.0 30.5 + - - +
21B ALA* 5.1 8.7 - - + -
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Residues in contact with GLN 303 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A LYS* 4.1 13.3 + - - -
221A LEU* 4.5 15.5 + - + +
225A THR* 5.3 6.9 + - - +
299A LEU* 3.0 23.5 + - + +
300A ARG* 4.1 4.5 - - - +
301A ASN 3.4 0.2 - - - -
302A ALA* 1.3 75.0 - - - +
304A VAL* 1.3 58.5 + - + +
306A GLU* 3.4 11.1 - - - +
307A LEU* 3.0 30.3 + - + +
21B ALA* 4.5 12.6 - - + +
22B LEU* 3.8 23.0 - - + +
25B TYR* 3.2 52.0 - - - +
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Residues in contact with VAL 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221A LEU* 3.8 33.7 - - + -
224A LEU* 5.3 4.9 - - + -
269A LEU* 4.8 16.9 - - + +
272A LEU* 4.5 18.2 - - + -
273A ARG* 5.2 17.0 - - + +
276A LEU* 5.9 3.4 - - + -
300A ARG 3.0 22.0 + - - +
301A ASN* 3.5 13.5 - - - +
303A GLN* 1.3 75.1 - - + +
305A THR* 1.3 63.8 + - - +
307A LEU* 3.7 10.5 - - + +
308A LEU* 3.0 32.2 + - + +
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Residues in contact with THR 305 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273A ARG* 3.1 26.7 + - - +
301A ASN* 2.3 34.1 + - - -
302A ALA* 3.1 8.9 + - - -
304A VAL* 1.3 77.6 - - - +
306A GLU* 1.3 58.5 + - - +
308A LEU* 3.3 9.5 - - - +
309A GLN* 3.0 51.4 + - - +
442A LEU* 4.4 2.0 - - + -
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Residues in contact with GLU 306 (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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302A ALA 3.0 13.0 + - - +
303A GLN* 3.4 11.3 - - - +
305A THR* 1.3 75.7 - - - +
307A LEU* 1.3 62.9 + - - +
309A GLN* 4.1 6.5 - - - +
310A ARG* 2.9 29.8 + - - +
20B SER* 2.7 23.0 + - - -
21B ALA* 3.3 11.7 - - - +
22B LEU* 2.6 51.4 + - + +
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Residues in contact with LEU 307 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224A LEU* 5.1 7.9 - - + -
225A THR* 3.3 37.7 - - - +
228A ILE* 3.8 31.2 - - + -
269A LEU* 4.0 25.8 - - + -
303A GLN* 3.0 24.9 + - + +
304A VAL* 3.7 9.2 - - + +
305A THR 3.2 0.2 - - - -
306A GLU* 1.3 79.2 - - + +
308A LEU* 1.3 61.9 + - - +
310A ARG* 3.2 15.5 - - + +
311A LEU* 3.0 26.9 + - + +
22B LEU* 5.1 12.3 - - + -
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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
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266A ALA* 6.1 0.4 - - + -
269A LEU* 4.5 26.0 - - + -
270A PHE* 3.6 47.8 - - + +
273A ARG* 3.9 11.2 - - + +
304A VAL* 3.0 20.5 + - + +
305A THR* 3.3 28.3 - - - +
307A LEU* 1.3 80.5 - - - +
309A GLN* 1.3 59.0 + - - +
311A LEU* 4.0 9.0 - - + +
312A LEU* 2.8 34.1 + - + +
442A LEU* 3.7 24.5 - - + -
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Residues in contact with GLN 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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305A THR* 3.0 33.0 + - - +
306A GLU* 4.1 6.6 - - - +
307A LEU 3.2 0.2 - - - -
308A LEU* 1.3 77.4 - - - +
310A ARG* 1.3 59.9 + - - +
313A HIS* 2.9 14.2 + - - +
442A LEU* 3.4 35.8 - - + +
443A LYS 4.5 7.7 + - - -
444A GLN* 2.6 47.1 + - - +
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Residues in contact with ARG 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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225A THR* 5.9 0.4 + - - -
228A ILE* 4.8 18.4 - - - +
229A GLU* 6.2 2.6 - - - +
232A LEU* 6.2 0.4 - - - +
306A GLU 2.9 17.1 + - - +
307A LEU* 3.2 20.8 - - - +
309A GLN* 1.3 75.2 - - - +
311A LEU* 1.3 69.7 + - - +
313A HIS* 3.1 10.7 + - + +
314A ARG* 3.0 46.4 + - - +
22B LEU* 4.0 22.4 - - + +
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Residues in contact with LEU 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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228A ILE* 3.7 44.6 - - + -
231A LEU* 5.3 5.8 - - + -
235A LEU* 6.2 2.2 - - + -
262A PHE* 4.7 21.8 - - + -
265A GLY* 6.0 4.7 - - - -
266A ALA* 5.7 9.0 - - + +
269A LEU* 6.0 2.7 - - + -
307A LEU* 3.0 18.9 + - + +
308A LEU* 4.0 8.3 - - + +
310A ARG* 1.3 79.3 - - - +
312A LEU* 1.3 68.9 + - + +
314A ARG* 3.3 3.6 + - - +
315A ALA* 3.2 40.1 + - + +
348A VAL* 5.0 10.3 - - + -
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Residues in contact with LEU 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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266A ALA* 6.0 0.9 - - + -
270A PHE* 4.6 13.0 - - + -
308A LEU* 2.8 20.8 + - + +
311A LEU* 1.3 80.2 - - + +
313A HIS* 1.3 61.9 + - - +
314A ARG 3.4 0.2 + - - -
315A ALA* 3.7 9.7 + - - +
316A PHE* 5.2 0.2 - - - +
348A VAL* 4.8 23.8 - - + -
437A TYR* 3.9 37.9 - - + -
442A LEU* 3.8 20.6 - - + -
444A GLN* 3.3 28.5 - - + +
446A LEU* 3.3 24.8 - - + +
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Residues in contact with HIS 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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309A GLN 2.9 20.1 + - - +
310A ARG* 3.1 13.7 + - - +
312A LEU* 1.3 77.2 - - - +
314A ARG* 1.3 61.0 + - + +
315A ALA 3.6 0.7 + - - -
316A PHE 5.1 0.7 + - - -
444A GLN* 4.2 7.6 - - - +
445A GLU 5.6 1.8 - - - -
446A LEU* 3.3 23.6 - - + +
447A LYS 5.4 2.9 - - - +
448A THR* 5.4 2.3 + - - -
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Residues in contact with ARG 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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232A LEU* 3.3 55.0 - - + +
235A LEU* 4.5 8.0 - - - +
236A GLU* 6.4 1.8 - - - -
310A ARG* 3.0 39.1 + - - +
311A LEU* 3.5 3.9 - - - +
312A LEU 3.3 0.4 - - - -
313A HIS* 1.3 82.0 - - + +
315A ALA* 1.3 58.2 + - - +
316A PHE 3.9 2.0 - - - +
317A VAL* 5.5 4.5 - - + +
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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