Contacts of the helix formed by residues 266 - 284 (chain A) in PDB entry 2G19
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 CYS 266 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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225A GLU* 3.3 6.1 - - - -
229A LEU* 4.0 24.2 - - - -
259A ILE* 3.9 32.5 - - + -
261A GLY 3.5 5.4 - - - +
263A GLU* 3.0 37.4 + - - +
264A PRO 4.2 3.8 - - - -
265A GLY* 1.3 84.0 - - - +
267A GLU* 1.3 60.5 + - - +
268A THR 3.3 3.4 - - - -
269A ILE* 3.1 9.1 + - + +
270A GLY 3.0 21.3 + - - -
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Residues in contact with GLU 267 (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 GLU* 3.6 5.0 + - - +
261A GLY 3.9 8.7 - - - +
262A LYS* 4.5 12.7 - - - +
263A GLU 3.9 13.9 - - - +
264A PRO* 5.5 2.9 - - - -
265A GLY 3.6 5.6 - - - +
266A CYS* 1.3 77.5 - - - +
268A THR* 1.3 61.1 + - - +
270A GLY* 3.2 1.6 + - - -
271A LEU* 2.9 24.6 + - - +
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Residues in contact with THR 268 (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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218A THR* 3.8 15.7 - - + +
221A GLN* 3.8 35.3 + - + +
222A ILE* 3.6 23.8 - - + +
225A GLU* 2.8 24.8 + - - -
267A GLU* 1.3 75.8 - - - +
269A ILE* 1.3 61.3 + - - +
271A LEU* 3.1 13.6 + - + +
272A LEU* 2.9 26.5 + - - +
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Residues in contact with ILE 269 (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 ILE* 4.3 11.4 - - + -
225A GLU* 3.0 25.5 + - + +
226A VAL* 4.0 15.7 - - + -
229A LEU* 4.0 26.7 - - + -
259A ILE* 3.8 24.7 - - + -
266A CYS* 3.1 15.9 + - + +
268A THR* 1.3 77.8 - - - +
270A GLY* 1.3 62.0 + - - +
272A LEU* 3.1 8.5 + - + +
273A MET* 3.0 32.1 + - + +
298A ALA* 4.7 5.4 - - + -
300A VAL* 4.8 3.6 - - + -
386A ILE* 4.2 25.4 - - + -
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Residues in contact with GLY 270 (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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261A GLY* 3.4 32.5 - - - -
266A CYS 3.0 10.1 + - - -
267A GLU 3.2 2.9 + - - -
268A THR 3.1 0.2 - - - -
269A ILE* 1.3 78.1 - - - +
271A LEU* 1.3 56.4 + - - +
273A MET* 3.2 7.5 + - - +
274A SER* 2.9 32.3 + - - -
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Residues in contact with LEU 271 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A LEU* 6.1 2.2 - - + -
218A THR* 4.5 22.9 - - + +
221A GLN* 6.0 1.1 - - - +
267A GLU 2.9 13.4 + - - +
268A THR* 3.1 15.5 + - + +
270A GLY* 1.3 77.3 - - - +
272A LEU* 1.3 60.7 + - - +
274A SER* 3.4 9.9 + - - -
275A SER* 2.8 34.1 + - - +
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Residues in contact with LEU 272 (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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213A PHE* 4.0 12.3 - - + -
214A LEU* 3.8 20.8 - - + +
222A ILE* 3.9 11.2 - - + -
268A THR 2.9 12.8 + - - +
269A ILE* 3.1 9.4 + - + +
271A LEU* 1.3 76.6 - - - +
273A MET* 1.3 57.8 - - + +
275A SER* 3.0 7.8 + - - -
276A MET* 2.9 50.8 + - + +
328A TYR* 3.5 48.9 - - + -
386A ILE* 3.7 29.4 - - + -
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Residues in contact with MET 273 (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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259A ILE 3.5 14.6 - - - +
260A GLU 3.3 26.7 - - - +
261A GLY* 3.9 13.2 - - - -
269A ILE* 3.0 25.8 + - + +
270A GLY* 3.2 6.5 + - - +
272A LEU* 1.3 79.0 - - + +
274A SER* 1.3 59.7 + - - +
276A MET* 3.2 10.8 + - - +
277A ASP* 2.9 35.2 + - - +
295A ARG* 3.5 37.9 - - - +
297A LYS* 4.3 1.3 - - - -
298A ALA* 3.7 30.1 - - + +
386A ILE* 5.6 0.4 - - + -
388A VAL* 4.5 8.7 - - + -
390A TYR* 4.3 0.2 + - - -
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Residues in contact with SER 274 (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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270A GLY 2.9 17.4 + - - -
271A LEU* 3.7 13.1 - - - -
273A MET* 1.3 76.2 - - - +
275A SER* 1.3 56.4 + - - +
277A ASP* 3.3 10.6 + - - +
278A ASP* 2.9 38.3 + - - +
281A ARG* 4.7 0.2 + - - -
295A ARG* 5.7 1.1 + - - +
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Residues in contact with SER 275 (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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190A ALA* 5.7 0.3 - - - +
213A PHE* 3.8 22.6 - - - -
214A LEU* 4.0 14.0 - - - +
271A LEU* 2.8 26.5 + - - +
272A LEU 3.0 9.2 + - - -
274A SER* 1.3 73.0 - - - +
276A MET* 1.3 65.9 + - - +
278A ASP* 3.4 11.9 + - - +
279A LEU* 3.2 26.2 + - - +
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Residues in contact with MET 276 (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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213A PHE* 4.8 2.0 - - + -
272A LEU* 2.9 34.9 + - + +
273A MET* 3.5 10.1 - - - +
275A SER* 1.3 75.7 - - - +
277A ASP* 1.3 64.3 + - - +
279A LEU* 3.1 12.8 + - - +
280A ILE* 3.0 25.1 + - - +
326A CYS* 3.5 30.5 - - - +
328A TYR* 3.7 34.5 - - + +
363A LEU* 3.8 8.7 - - + -
365A PHE* 5.2 1.2 - - + -
386A ILE* 4.1 9.9 - - + +
388A VAL* 3.4 33.2 - - + -
390A TYR* 3.3 12.1 - - + +
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Residues in contact with ASP 277 (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 MET 2.9 15.8 + - - +
274A SER* 3.5 12.3 - - - +
276A MET* 1.3 77.1 - - - +
278A ASP* 1.3 56.1 + - - +
280A ILE* 3.3 3.0 + - - +
281A ARG* 2.9 53.4 + - + +
295A ARG* 2.8 43.0 + - - -
390A TYR* 2.6 35.4 + - - -
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Residues in contact with ASP 278 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A ALA* 4.7 12.1 - - + -
274A SER* 2.9 27.0 + - - +
275A SER* 3.6 10.6 + - - +
276A MET 3.2 0.4 - - - -
277A ASP* 1.3 77.2 - - - +
279A LEU* 1.3 62.7 + - - +
281A ARG* 2.8 28.2 + - - +
282A HIS* 3.1 36.2 + - + -
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Residues in contact with LEU 279 (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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190A ALA* 3.4 39.3 - - + +
193A LEU* 3.8 16.8 - - + -
194A ALA* 4.0 1.0 - - + +
198A ILE* 3.9 24.0 - - + -
213A PHE* 3.5 35.0 - - + -
275A SER 3.2 9.6 + - - +
276A MET* 3.1 8.4 + - - +
278A ASP* 1.3 78.6 - - - +
280A ILE* 1.3 63.3 + - - +
282A HIS* 3.2 7.2 + - - +
283A CYS* 3.1 27.7 + - - -
363A LEU* 3.7 17.7 - - + -
365A PHE* 4.0 8.7 - - + -
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Residues in contact with ILE 280 (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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198A ILE* 6.4 0.7 - - + -
276A MET 3.0 13.6 + - - +
277A ASP 3.7 6.5 - - - +
279A LEU* 1.3 75.2 - - - +
281A ARG* 1.3 66.3 + - + +
283A CYS* 2.9 8.0 + - + +
284A ASN* 2.8 23.6 + - - +
287A LEU* 4.2 20.1 - - + +
292A ILE* 3.7 41.1 - - + -
324A VAL* 4.7 3.6 - - + -
365A PHE* 4.0 25.8 - - + -
390A TYR* 3.5 38.1 - - + -
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Residues in contact with ARG 281 (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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274A SER 4.7 0.2 + - - -
277A ASP* 2.9 34.0 + - + +
278A ASP* 2.8 44.2 + - - +
279A LEU 3.3 0.2 - - - -
280A ILE* 1.3 78.7 - - + +
282A HIS* 1.3 65.6 + - + +
283A CYS 3.2 0.9 + - - -
284A ASN* 3.3 25.2 + - - +
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Residues in contact with HIS 282 (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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190A ALA* 3.7 21.5 - - + +
191A LEU* 3.4 48.9 + - + +
194A ALA* 3.8 10.3 - - + -
195A LEU* 3.8 21.1 - - - +
278A ASP* 3.1 22.1 + - + -
279A LEU* 3.7 7.1 - - - +
280A ILE 3.2 0.4 - - - -
281A ARG* 1.3 80.6 - - + +
283A CYS* 1.3 59.5 + - - +
284A ASN 5.0 0.6 - - - +
286A LYS* 4.6 5.4 + - - -
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Residues in contact with CYS 283 (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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194A ALA* 3.7 18.2 - - - -
198A ILE* 4.0 22.9 - - - -
199A VAL* 3.8 20.0 - - + -
279A LEU 3.1 21.3 + - - -
280A ILE* 2.9 10.8 + - - +
282A HIS* 1.3 79.1 - - - +
284A ASN* 1.3 60.4 + - - +
286A LYS* 2.7 31.4 + - - +
287A LEU* 3.5 28.1 + - + -
365A PHE* 6.5 0.2 - - - -
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Residues in contact with ASN 284 (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 ILE* 2.8 13.5 + - - +
281A ARG* 3.3 21.4 + - - +
282A HIS 5.0 1.0 - - - +
283A CYS* 1.3 78.3 - - - +
285A GLY* 1.3 63.9 + - - +
286A LYS* 4.4 7.3 + - - +
287A LEU* 5.6 2.9 - - - -
290A TYR 4.3 0.7 - - - +
291A LYS* 3.8 6.8 - - - -
292A ILE* 2.9 58.5 + - - +
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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
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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