Contacts of the helix formed by residues 255 - 274 (chain A) in PDB entry 1XAI
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 PRO 255 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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170A LYS* 3.8 30.1 - - + -
171A GLN* 5.1 5.4 - - - +
174A SER* 3.5 11.7 - - - +
253A LYS 4.9 0.4 - - - +
254A ILE* 1.3 91.5 - - + +
256A HIS* 1.3 66.7 + - - +
257A GLY 3.4 0.2 - - - -
258A HIS* 3.2 38.4 + - + +
259A ALA* 3.1 19.2 + - - +
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Residues in contact with HIS 256 (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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127A LEU* 3.6 30.1 - - + -
145A LYS* 4.1 9.3 - - - +
174A SER* 3.8 1.8 + - - -
178A GLU* 3.3 10.5 + - - -
242A HIS* 3.7 5.6 + + - -
245A GLY 6.0 0.4 - - - -
246A HIS* 3.5 29.4 - + - -
249A GLU* 3.0 34.2 + - - +
254A ILE 3.6 0.4 + - - -
255A PRO* 1.3 73.4 - - - +
257A GLY* 1.3 57.7 + - - +
259A ALA* 3.2 3.9 + - - +
260A VAL* 2.9 38.3 + - + +
500A CRB 3.3 3.2 + - - -
600A ZN 2.2 35.6 - - - -
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Residues in contact with GLY 257 (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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127A LEU* 4.0 2.4 - - - +
174A SER* 3.0 35.6 + - - -
177A ALA* 3.1 19.4 - - - +
178A GLU* 5.5 0.9 - - - -
256A HIS* 1.3 74.8 - - - +
258A HIS* 1.3 56.9 + - - +
260A VAL* 3.0 5.3 + - - -
261A MET* 2.8 33.3 + - - +
293A TYR* 4.7 0.4 - - - -
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Residues in contact with HIS 258 (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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170A LYS* 2.9 39.1 + - + +
173A LEU* 3.9 14.1 - - + +
174A SER* 3.5 15.5 - - - -
254A ILE* 4.0 13.5 - - + -
255A PRO* 3.2 36.5 - - + +
256A HIS 3.4 0.2 - - - -
257A GLY* 1.3 75.0 - - - +
259A ALA* 1.3 62.4 + - - +
261A MET* 3.4 2.9 + - - +
262A VAL* 3.2 27.5 + - + +
293A TYR* 4.2 16.4 - + + -
294A PRO* 3.7 33.4 - - + +
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Residues in contact with ALA 259 (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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245A GLY* 3.4 30.4 - - - +
248A VAL* 4.4 3.3 - - + +
249A GLU* 3.8 16.2 - - + +
254A ILE* 3.5 18.1 - - + +
255A PRO 3.1 13.4 + - - +
256A HIS* 3.5 8.5 - - - +
258A HIS* 1.3 75.6 - - - +
260A VAL* 1.3 52.5 + - + +
262A VAL* 3.2 7.5 + - - +
263A GLY* 2.6 32.4 + - - -
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Residues in contact with VAL 260 (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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177A ALA* 4.0 20.2 - - + +
178A GLU* 4.0 6.1 - - - +
181A LYS* 5.0 3.1 - - + -
240A LEU 4.4 0.9 - - - +
241A GLY 3.8 7.7 - - - +
242A HIS* 3.7 39.9 - - + +
245A GLY* 4.7 2.0 - - - -
256A HIS* 2.9 33.5 + - + +
257A GLY* 3.0 10.5 + - - +
259A ALA* 1.3 72.9 - - + +
261A MET* 1.3 54.1 + - - +
263A GLY* 2.7 2.6 + - - -
264A ILE* 2.5 56.6 + - + +
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Residues in contact with MET 261 (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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176A TYR* 5.5 1.3 - - - -
177A ALA* 3.1 42.2 - - + +
180A TYR* 3.6 31.6 - - + -
257A GLY 2.8 13.8 + - - +
258A HIS 3.6 7.9 - - - +
260A VAL* 1.3 71.7 - - + +
262A VAL* 1.3 60.4 + - + +
264A ILE* 2.8 31.5 + - + +
265A ILE* 3.1 17.3 + - - +
288A LEU* 3.5 37.5 - - + -
291A LEU* 5.7 0.4 - - - -
293A TYR* 3.5 37.5 - - + -
295A LEU* 6.5 0.2 - - + -
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Residues in contact with VAL 262 (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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244A PHE* 4.1 11.4 - - + -
248A VAL* 4.9 10.1 - - + -
254A ILE* 5.1 2.9 - - + -
258A HIS 3.2 15.2 + - - +
259A ALA* 3.2 10.5 + - - +
261A MET* 1.3 77.0 - - + +
263A GLY* 1.3 61.1 + - - +
265A ILE* 4.3 6.0 - - - +
266A TYR* 3.3 22.5 + - - +
288A LEU* 5.5 3.4 - - + -
295A LEU* 5.3 9.2 - - + -
297A MET* 3.8 27.4 - - + -
298A ILE* 4.7 14.4 - - + -
301A LEU* 5.0 6.1 - - + -
349A LEU* 4.1 18.8 - - + +
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Residues in contact with GLY 263 (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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241A GLY* 3.2 24.3 - - - -
244A PHE* 4.4 8.5 - - - +
245A GLY* 4.0 11.0 - - - -
259A ALA 2.6 17.0 + - - -
260A VAL 2.7 6.2 + - - -
262A VAL* 1.3 74.7 - - - +
264A ILE* 1.3 54.4 + - - +
266A TYR* 3.6 4.9 + - - +
267A GLN* 3.1 27.0 + - - +
323A MET* 5.7 0.2 - - - +
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Residues in contact with ILE 264 (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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180A TYR* 4.9 6.3 - - + -
181A LYS* 4.3 6.7 - - + -
184A LEU* 3.6 23.1 - - + -
240A LEU* 3.4 42.6 - - + +
241A GLY* 3.9 0.4 - - - +
260A VAL* 2.5 33.3 + - + +
261A MET* 2.8 23.4 + - + +
263A GLY* 1.3 69.5 - - - +
265A ILE* 1.3 63.7 + - + +
266A TYR 3.1 1.3 - - - -
267A GLN* 2.8 38.6 + - - +
268A PHE* 3.1 25.1 + - + -
284A TYR* 5.6 0.9 - - + -
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Residues in contact with ILE 265 (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 MET 3.1 13.5 + - - +
262A VAL* 4.4 4.0 - - - +
264A ILE* 1.3 79.0 - - + +
266A TYR* 1.3 57.9 + - - +
268A PHE* 3.3 11.4 + - - +
269A ILE* 3.0 30.1 + - - +
281A ILE* 4.0 26.2 - - + -
284A TYR* 3.6 15.3 - - + -
285A ILE* 3.5 37.2 - - + +
288A LEU* 3.3 28.7 - - + -
349A LEU* 3.6 20.4 - - + -
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Residues in contact with TYR 266 (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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244A PHE* 3.4 55.6 - + + -
262A VAL 3.3 18.0 + - - +
263A GLY 3.6 2.7 - - - +
265A ILE* 1.3 77.2 - - - +
267A GLN* 1.3 67.1 + - - +
269A ILE* 3.3 6.1 - - - +
270A VAL* 3.2 31.8 + - + +
303A PHE* 5.3 0.7 - - - -
310A MET* 4.7 2.1 - - + +
323A MET* 3.9 20.4 - - + -
342A LEU* 2.9 41.0 + - + +
345A ALA* 3.7 37.9 - - + -
346A CYS* 3.7 8.3 - - + -
349A LEU* 3.6 15.0 - - + +
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Residues in contact with GLN 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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240A LEU* 3.9 15.4 - - + +
241A GLY* 4.5 6.7 - - - +
263A GLY 3.1 14.2 + - - +
264A ILE* 2.8 27.1 + - - +
266A TYR* 1.3 80.0 - - - +
268A PHE* 1.3 84.0 + - - +
270A VAL* 3.2 5.4 + - - +
271A ALA* 2.9 24.1 + - - +
323A MET* 4.1 11.4 - - + -
324A VAL 3.3 23.3 - - - +
325A LEU* 3.5 8.2 - - + +
326A MET* 2.7 40.6 + - - +
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Residues in contact with PHE 268 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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184A LEU* 3.7 19.7 - - + -
240A LEU* 6.5 0.2 - - + -
264A ILE* 3.1 36.7 + - + -
265A ILE* 3.5 11.4 - - - +
267A GLN* 1.3 91.0 - - - +
269A ILE* 1.3 68.1 + - - +
271A ALA* 2.9 11.7 + - - -
272A ASN* 3.0 12.7 + - - -
279A HIS* 3.3 46.4 - + + -
281A ILE* 3.7 13.9 - - + -
284A TYR* 3.4 51.4 - + - -
326A MET* 4.0 18.2 - - - -
329A PHE* 5.5 1.1 - + - -
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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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265A ILE* 3.0 20.8 + - + +
266A TYR* 3.3 9.6 - - - +
267A GLN 3.3 0.4 - - - -
268A PHE* 1.3 76.8 - - - +
270A VAL* 1.3 55.1 + - - +
272A ASN* 3.4 12.7 - - - +
273A ALA* 3.0 23.4 + - + +
281A ILE* 4.0 13.2 - - + +
345A ALA* 3.5 28.9 - - + -
348A GLN* 3.4 29.2 - - - +
349A LEU* 3.3 52.7 - - + +
352A TYR* 4.1 8.1 - - + -
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Residues in contact with VAL 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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266A TYR* 3.2 36.3 + - + +
267A GLN 3.2 7.8 + - - +
268A PHE 3.0 0.4 - - - -
269A ILE* 1.3 73.6 - - - +
271A ALA* 1.3 52.8 + - - +
272A ASN 2.9 5.4 - - - -
273A ALA* 2.9 7.2 + - - +
274A LEU* 2.7 48.6 + - + +
323A MET* 4.3 5.6 - - + -
325A LEU* 3.3 21.5 - - + -
337A VAL* 4.0 8.7 - - + -
341A THR* 3.3 27.4 - - + -
345A ALA* 3.8 7.9 - - + -
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Residues in contact with ALA 271 (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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267A GLN 2.9 12.6 + - - +
268A PHE* 2.9 6.8 + - - +
270A VAL* 1.3 75.1 - - - +
272A ASN* 1.3 56.3 - - - +
274A LEU 4.1 0.9 - - - -
275A PHE* 3.5 21.8 + - + -
276A ASP 2.9 18.9 + - - -
277A SER* 3.2 10.9 + - - -
279A HIS* 3.1 17.7 - - - +
325A LEU* 4.2 1.7 - - + +
326A MET 2.8 35.9 - - - +
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Residues in contact with ASN 272 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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268A PHE 3.0 17.1 + - - -
269A ILE* 3.4 8.9 - - - +
270A VAL 2.9 0.6 - - - -
271A ALA* 1.3 75.4 - - - +
273A ALA* 1.3 68.3 + - - +
274A LEU 3.0 2.0 - - - +
276A ASP* 2.8 32.2 + - - +
278A LYS* 3.0 12.8 + - - -
279A HIS* 2.6 45.9 + - - +
281A ILE* 3.6 20.2 - - - +
348A GLN* 5.2 6.3 - - - +
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Residues in contact with ALA 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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269A ILE* 3.0 12.7 + - + +
270A VAL 2.9 8.3 + - - +
272A ASN* 1.3 80.2 - - - +
274A LEU* 1.3 61.8 + - - +
340A LEU* 5.8 4.4 - - + +
341A THR* 3.4 29.4 - - + +
344A HIS 6.6 0.2 - - - -
345A ALA* 5.5 1.3 - - + -
348A GLN* 5.7 2.0 + - - +
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Residues in contact with LEU 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 VAL* 2.7 28.0 + - + +
272A ASN 2.9 0.7 + - - +
273A ALA* 1.3 79.2 - - + +
275A PHE* 1.3 79.7 + - + +
276A ASP* 3.2 4.1 + - - +
325A LEU* 3.6 31.0 - - + -
335A GLN* 4.0 13.0 - - - +
336A HIS 4.6 1.6 - - - +
337A VAL* 4.2 11.9 - - + -
340A LEU* 5.6 2.9 - - + -
341A THR* 3.2 24.9 - - - +
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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
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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