Contacts of the helix formed by residues 306 - 331 (chain A) in PDB entry 2X7X
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 ASN 306 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A VAL* 3.0 27.9 + - - +
302A VAL* 3.2 9.4 - - - +
303A ASP* 2.9 32.8 + - - -
305A THR* 1.3 76.8 + - - +
307A ALA* 1.3 64.7 + - - +
308A HIS 3.4 2.0 - - - -
309A VAL* 3.7 4.8 - - - +
310A MET* 3.4 21.0 + - - +
305B THR 3.7 12.3 + - - +
306B ASN* 3.2 31.4 - - + +
309B VAL* 3.6 20.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 307 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A LEU* 3.6 17.2 - - + +
260A VAL* 3.8 20.2 - - + -
261A LEU* 3.7 24.2 - - + +
302A VAL* 4.4 2.5 - - + -
303A ASP 2.9 16.2 + - - +
304A ARG* 3.8 6.9 + - - +
306A ASN* 1.3 80.6 - - - +
308A HIS* 1.3 57.4 + - - +
310A MET* 3.3 4.4 + - - +
311A GLN* 2.9 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 308 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261A LEU* 3.9 13.3 - - + +
304A ARG 4.9 4.0 + - - +
306A ASN 3.4 0.6 - - - -
307A ALA* 1.3 74.9 - - - +
309A VAL* 1.3 66.3 + - + +
311A GLN* 3.1 22.4 + - - +
312A LEU* 3.1 31.3 + - + +
298B ASN* 5.4 4.0 + - + +
299B THR 3.4 21.3 + - - -
300B ALA* 3.5 7.5 - - + +
1332B PO4 3.1 41.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 309 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306A ASN 3.7 11.7 + - - +
308A HIS* 1.3 76.5 - - + +
310A MET* 1.3 63.8 + - - +
312A LEU* 3.5 9.1 + - - +
313A GLN* 3.2 27.9 + - - +
270B ILE* 4.4 4.3 - - + -
300B ALA* 3.8 17.5 - - + -
301B VAL 3.4 26.0 - - - +
302B VAL* 4.4 9.9 - - + -
306B ASN* 3.5 35.2 - - + +
309B VAL* 4.2 5.6 - - + -
310B MET* 4.5 19.3 - - + -
1332B PO4 5.3 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 310 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
249A ALA 3.9 21.1 - - - +
251A PRO* 5.3 3.4 - - + -
257A LEU* 4.2 19.3 - - + -
270A ILE* 4.0 14.1 - - + -
302A VAL* 3.7 27.4 - - + -
306A ASN 3.4 10.9 + - - +
307A ALA* 3.3 8.9 + - - +
308A HIS 3.2 0.4 - - - -
309A VAL* 1.3 83.9 - - - +
311A GLN* 1.3 57.6 + - - +
313A GLN* 3.3 5.0 + - - +
314A THR* 2.9 43.4 + - + +
309B VAL* 4.3 12.1 - - + -
310B MET* 6.2 0.2 - - - +
313B GLN* 3.5 34.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 311 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257A LEU* 3.9 8.9 - - + +
261A LEU* 3.4 29.9 - - + +
307A ALA 2.9 13.6 + - - +
308A HIS* 3.1 28.3 + - - +
310A MET* 1.3 74.3 - - - +
312A LEU* 1.3 76.3 + - - +
314A THR* 3.2 8.6 + - - +
315A THR* 2.9 38.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 312 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308A HIS* 3.1 26.2 + - + +
309A VAL* 3.7 7.6 - - - +
311A GLN* 1.3 83.3 - - - +
313A GLN* 1.3 72.2 + - - +
315A THR* 3.6 9.9 - - + +
316A HIS* 3.3 18.5 + - - +
270B ILE* 4.4 15.0 - - + -
298B ASN* 3.7 37.5 - - + +
299B THR 4.2 9.0 - - - +
300B ALA* 3.9 27.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 313 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309A VAL 3.2 18.1 + - - +
310A MET* 3.7 0.7 - - - +
311A GLN 3.1 0.8 - - - -
312A LEU* 1.3 84.3 - - - +
314A THR* 1.3 59.9 + - - +
316A HIS* 3.2 8.8 + - - +
317A ILE* 3.0 29.5 + - - +
270B ILE* 4.4 10.9 - - - +
310B MET* 4.2 33.0 - - - +
313B GLN* 3.4 33.0 - - + -
314B THR* 3.7 12.1 - - - +
317B ILE* 3.4 23.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 314 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A PRO* 3.7 38.7 - - + +
257A LEU* 3.7 3.5 - - + +
310A MET* 2.9 33.4 + - + +
311A GLN* 3.2 11.6 + - - +
313A GLN* 1.3 72.4 - - - +
315A THR* 1.3 68.0 + - - +
317A ILE* 3.0 13.0 + - + +
318A SER* 3.0 25.3 + - - -
313B GLN* 3.7 23.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 315 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
311A GLN* 2.9 33.1 + - - +
312A LEU* 3.6 11.0 - - + +
314A THR* 1.3 79.0 + - - +
316A HIS* 1.3 61.3 + - + +
318A SER* 3.5 9.9 - - - -
319A GLU* 3.5 22.1 + - + +
277B LYS* 6.4 0.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 316 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312A LEU 3.3 8.8 + - - +
313A GLN* 3.2 11.6 + - - +
314A THR 3.1 0.6 - - - -
315A THR* 1.3 77.5 - - - +
317A ILE* 1.3 65.5 + - - +
319A GLU* 3.0 26.2 + - + +
320A LEU* 3.0 36.1 + - + +
323A LYS* 6.4 0.2 - - - -
52B GLU* 5.3 2.1 - - - +
55B ARG* 5.4 1.4 + - - -
274B ASN* 5.5 7.8 + - - -
276B ASP* 4.7 20.3 + - - -
317B ILE* 3.7 20.4 - - + +
1333B PO4 3.2 37.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 317 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A GLN 3.0 16.5 + - - +
314A THR* 3.0 15.4 + - + +
316A HIS* 1.3 75.9 - - - +
318A SER* 1.3 62.1 + - - +
320A LEU* 3.1 6.4 + - - +
321A ASP* 2.9 24.4 + - - +
1333A PO4 3.2 37.0 - - - +
313B GLN* 3.5 37.2 - - + +
316B HIS* 3.5 21.3 - - + -
317B ILE* 3.5 19.7 - - + -
320B LEU* 4.0 12.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 318 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
251A PRO* 6.1 1.0 - - - +
314A THR 3.0 12.2 + - - -
315A THR* 3.5 14.1 - - - -
316A HIS 3.3 0.2 - - - -
317A ILE* 1.3 75.7 - - - +
319A GLU* 1.3 63.0 + - - +
321A ASP* 3.3 11.0 + - - +
322A LYS* 3.2 25.2 + - - +
1333A PO4 5.3 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 319 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A THR* 3.5 14.5 + - + +
316A HIS* 3.0 20.2 + - + +
318A SER* 1.3 78.0 - - - +
320A LEU* 1.3 65.0 + - + +
321A ASP 3.2 0.2 + - - -
322A LYS* 3.3 13.6 - - + +
323A LYS* 3.1 39.0 + - - +
276B ASP* 5.4 6.3 - - - +
277B LYS* 5.5 10.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 320 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316A HIS* 3.0 45.8 + - + +
317A ILE* 3.1 6.0 + - - +
319A GLU* 1.3 75.4 - - - +
321A ASP* 1.3 61.1 + - - +
323A LYS* 3.4 20.3 - - + +
324A ILE* 3.2 28.3 + - - +
55B ARG* 4.6 6.7 - - - +
317B ILE* 4.0 34.1 - - + +
320B LEU* 3.9 24.0 - - + -
321B ASP* 4.0 17.7 - - - +
324B ILE* 4.0 15.4 - - + +
1333B PO4 4.4 2.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 321 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 3.4 31.8 + - - +
317A ILE* 2.9 16.4 + - - +
318A SER* 3.4 12.1 - - - +
319A GLU 3.1 0.2 - - - -
320A LEU* 1.3 73.1 - - - +
322A LYS* 1.3 60.5 + - - +
323A LYS 3.1 1.8 - - - -
324A ILE* 3.0 9.5 + - - +
325A GLU* 3.0 29.3 + - + +
1333A PO4 2.5 41.9 + - - -
320B LEU* 3.8 14.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 322 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318A SER 3.2 10.9 + - - +
319A GLU* 3.3 21.1 - - + +
321A ASP* 1.3 75.5 - - - +
323A LYS* 1.3 57.2 + - + +
325A GLU* 3.7 10.9 - - + +
326A THR* 2.7 38.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 323 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316A HIS* 6.4 0.4 - - - -
319A GLU* 3.1 27.8 + - - +
320A LEU* 3.4 22.9 - - + +
321A ASP 3.1 0.2 - - - -
322A LYS* 1.3 78.4 - - + +
324A ILE* 1.3 58.0 + - - +
326A THR* 3.3 3.4 + - - -
327A LEU* 2.9 31.6 + - - +
55B ARG* 5.8 7.4 - - + +
56B GLU* 3.0 34.9 + - - +
59B PHE* 3.8 37.4 - - + -
276B ASP* 4.5 14.5 + - - +
280B GLN* 4.6 5.5 - - - +
324B ILE* 4.1 19.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 324 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 3.8 32.8 - - + -
59A PHE* 4.5 5.8 - - + -
320A LEU 3.2 14.5 + - - +
321A ASP* 3.0 9.9 + - - +
323A LYS* 1.3 78.4 - - - +
325A GLU* 1.3 58.3 + - - +
327A LEU* 3.9 5.4 - - - +
328A ASN* 3.0 37.6 + - - +
320B LEU* 3.9 42.6 - - + +
323B LYS* 4.1 17.5 - - + +
324B ILE* 3.6 17.9 - - + -
327B LEU* 4.0 8.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 325 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 5.0 14.4 - - + +
321A ASP 3.0 20.3 + - - +
322A LYS* 3.9 9.6 - - - +
323A LYS 3.2 0.4 - - - -
324A ILE* 1.3 75.8 - - + +
326A THR* 1.3 63.7 + - - +
328A ASN* 3.4 7.1 + - - +
329A GLY* 3.1 19.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 326 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322A LYS* 2.7 22.6 + - - +
323A LYS* 3.3 5.5 + - - -
325A GLU* 1.3 75.3 - - - +
327A LEU* 1.3 61.6 + - - +
329A GLY* 3.5 2.0 + - - -
330A ARG* 3.3 51.3 + - + +
59B PHE* 4.4 13.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 327 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
323A LYS 2.9 14.9 + - - +
324A ILE* 3.9 0.9 - - - +
326A THR* 1.3 77.4 - - - +
328A ASN* 1.3 62.2 + - - +
330A ARG* 3.7 15.6 + - - +
331A ILE* 3.7 24.6 + - - +
58B MET 6.1 0.9 - - - +
59B PHE* 4.1 27.6 - - + -
324B ILE* 4.3 14.6 - - + +
327B LEU* 3.5 44.2 - - + +
328B ASN* 3.5 32.3 - - - +
331B ILE* 4.2 17.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 328 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 4.4 10.7 + - - +
58A MET* 3.7 48.8 - - - +
59A PHE* 4.8 2.9 - - - -
324A ILE* 3.0 32.8 + - - +
325A GLU* 3.4 8.1 + - - +
327A LEU* 1.3 76.7 - - - +
329A GLY* 1.3 62.4 + - - +
331A ILE* 3.2 26.1 + - - +
327B LEU* 3.7 23.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 329 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
325A GLU 3.1 14.4 + - - -
326A THR* 3.5 2.9 + - - -
327A LEU 3.4 0.2 - - - -
328A ASN* 1.3 76.9 - - - +
330A ARG* 1.3 61.5 + - - +
331A ILE 3.4 5.4 + - - +
332A GLY 4.1 8.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 330 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326A THR* 3.3 37.3 + - + +
327A LEU* 4.1 17.7 - - - +
328A ASN 3.3 0.6 - - - -
329A GLY* 1.3 76.3 - - - +
331A ILE* 1.3 61.6 + - - +
332A GLY 3.5 6.5 + - - +
58B MET 4.5 5.1 + - - -
59B PHE* 3.7 44.5 + - - +
331B ILE* 4.8 15.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 331 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327A LEU 3.7 15.0 + - - +
328A ASN* 3.2 22.2 + - - +
329A GLY 3.2 2.7 - - - +
330A ARG* 1.3 75.4 - - - +
332A GLY* 1.3 65.0 + - - +
327B LEU* 4.2 26.9 - - + +
330B ARG* 4.1 27.6 - - + +
331B ILE* 4.8 8.5 - - + -
----------------------------------------------------------
Back to top of page
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