Contacts of the helix formed by residues 243 - 256 (chain C) in PDB entry 2Q5E
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 243 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144C PRO 5.2 0.2 - - - -
145C TYR* 3.8 27.1 - - + -
241C ALA 3.6 8.8 + - - +
242C ASP* 1.3 81.4 + - - +
244C GLU* 1.3 64.2 + - - +
245C LEU 3.4 2.0 - - - -
246C LEU* 3.4 16.2 - - + +
247C ASN* 2.8 36.9 + - - -
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Residues in contact with GLU 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143C ARG* 3.3 22.4 - - - +
232C PRO 4.6 2.6 - - - +
233C VAL* 3.5 24.8 - - + +
234C GLN* 3.5 32.1 + - + +
242C ASP* 2.6 27.4 + - - +
243C THR* 1.3 73.7 - - - +
245C LEU* 1.3 61.2 + - - +
247C ASN* 3.1 15.1 + - - +
248C LEU* 3.1 30.5 + - - +
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Residues in contact with LEU 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111C THR* 3.9 19.3 - - + +
112C LEU* 4.4 7.2 - - + -
143C ARG* 3.7 29.8 - - - +
144C PRO 4.0 11.2 + - - +
145C TYR 4.5 1.1 - - - +
146C VAL* 3.7 43.3 - - + +
149C PHE* 3.3 41.0 - - + -
216C LEU* 5.4 1.1 - - + -
233C VAL* 4.8 3.4 - - + -
242C ASP* 4.2 0.6 + - - -
243C THR 3.4 0.2 - - - -
244C GLU* 1.3 76.5 - - - +
246C LEU* 1.3 61.0 + - - +
248C LEU* 3.2 12.9 + - + +
249C ILE* 3.1 26.6 + - - +
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Residues in contact with LEU 246 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C TYR* 4.4 33.5 - - + +
152C ARG* 5.6 3.8 - - - +
243C THR* 3.4 21.6 + - + +
245C LEU* 1.3 76.8 - - - +
247C ASN* 1.3 71.8 + - - +
248C LEU 3.1 1.2 + - - -
249C ILE* 3.1 28.9 + - + +
250C PRO* 3.2 9.9 - - - +
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Residues in contact with ASN 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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243C THR* 2.8 34.1 + - - -
244C GLU* 3.1 17.4 + - - +
246C LEU* 1.3 88.7 - - - +
248C LEU* 1.3 56.7 + - + +
250C PRO* 3.2 20.1 - - - +
251C ILE* 3.3 18.4 - - + +
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Residues in contact with LEU 248 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C PHE* 4.2 4.0 - - + -
216C LEU* 3.9 19.3 - - + -
231C VAL* 3.8 27.8 - - + -
232C PRO 4.2 8.3 - - - +
233C VAL* 3.7 30.1 - - + -
244C GLU* 3.1 20.7 + - - +
245C LEU* 3.6 15.9 - - + +
246C LEU 3.1 0.8 + - - -
247C ASN* 1.3 75.3 - - + +
249C ILE* 1.3 54.8 + - - +
251C ILE* 3.0 22.4 + - + +
252C PHE* 2.7 46.4 + - + -
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Residues in contact with ILE 249 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C TYR* 5.7 1.6 - - + +
148C GLU* 5.1 2.0 - - + -
149C PHE* 3.9 31.0 - - + +
152C ARG* 3.7 58.6 - - + +
153C MET* 5.8 3.8 - - - -
156C LEU* 6.2 1.1 - - + -
245C LEU 3.1 18.1 + - - +
246C LEU* 3.5 21.8 - - + +
248C LEU* 1.3 75.3 - - - +
250C PRO* 1.3 65.4 - - + +
252C PHE* 2.9 8.0 + - + +
253C GLU* 2.7 36.3 + - + +
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Residues in contact with PRO 250 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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246C LEU 3.2 10.8 - - - +
247C ASN* 3.2 20.4 - - - +
249C ILE* 1.3 92.9 - - + +
251C ILE* 1.3 60.5 + - + +
253C GLU* 3.8 16.2 - - - +
254C GLU* 3.1 29.1 + - - +
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Residues in contact with ILE 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231C VAL* 4.6 16.8 - - + -
247C ASN* 3.3 24.2 - - + +
248C LEU* 3.0 25.2 + - + +
250C PRO* 1.3 79.3 - - + +
252C PHE* 1.3 64.0 + - + +
254C GLU* 3.4 5.0 + - - +
255C LEU* 3.2 33.2 + - + +
265C LEU* 5.5 3.6 - - + -
268C LEU* 3.9 23.5 - - + +
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Residues in contact with PHE 252 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C VAL* 4.4 12.8 - - + -
149C PHE* 4.6 1.8 - + - -
153C MET* 3.8 32.3 - - + -
156C LEU* 5.7 0.9 - - + -
157C PHE* 3.2 40.8 - + + -
214C LEU* 3.5 28.3 - - + -
216C LEU* 4.4 18.4 - - + -
231C VAL* 3.6 36.1 - - + -
248C LEU* 2.7 42.9 + - + +
249C ILE* 2.9 5.9 + - + +
251C ILE* 1.3 73.1 - - + +
253C GLU* 1.3 57.7 + - - +
255C LEU* 3.3 5.2 + - + +
256C SER* 2.9 25.3 + - - -
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Residues in contact with GLU 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152C ARG* 3.3 29.1 + - - +
156C LEU* 3.8 25.6 - - + +
249C ILE* 2.7 25.3 + - + +
250C PRO* 3.8 17.8 - - - +
252C PHE* 1.3 70.5 - - - +
254C GLU* 1.3 62.6 + - - +
256C SER* 2.9 21.3 + - - -
257C GLY 4.4 0.2 + - - -
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Residues in contact with GLU 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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250C PRO 3.1 15.6 + - - +
251C ILE* 3.6 9.1 - - - +
253C GLU* 1.3 78.0 - - + +
255C LEU* 1.3 60.9 + - - +
256C SER 3.3 0.7 + - - -
257C GLY* 4.0 5.2 + - - -
258C ALA 4.8 1.4 + - - -
264C SER* 5.4 2.6 + - - -
268C LEU* 3.1 44.7 - - + +
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Residues in contact with LEU 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102C ILE* 3.8 6.3 - - + +
157C PHE* 4.6 1.1 - - + -
214C LEU* 3.8 26.9 - - + -
231C VAL* 4.6 4.9 - - + -
251C ILE* 3.2 24.5 + - + +
252C PHE* 3.7 11.7 - - + +
254C GLU* 1.3 75.1 - - - +
256C SER* 1.3 53.0 + - - +
257C GLY 2.7 17.4 + - - -
258C ALA* 2.8 23.3 + - - +
261C VAL* 4.5 14.4 - - + +
264C SER* 3.4 31.2 - - - +
265C LEU* 3.6 41.1 - - + +
268C LEU* 4.9 6.7 - - + -
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Residues in contact with SER 256 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100C GLY 5.6 1.7 - - - +
101C ARG* 5.8 1.2 - - - -
102C ILE* 4.0 13.5 + - - +
156C LEU* 3.9 39.0 - - - +
157C PHE* 3.6 20.8 - - - -
252C PHE 2.9 13.0 + - - -
253C GLU* 2.9 19.8 + - - -
255C LEU* 1.3 75.1 - - - +
257C GLY* 1.3 59.1 + - - +
258C ALA 3.6 0.4 - - - +
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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