Contacts of the helix formed by residues 184 - 207 (chain C) in PDB entry 4H9Q
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 SER 184 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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182C ARG 4.0 0.6 + - - -
183C GLY* 1.3 68.6 - - - -
185C ARG* 1.3 62.7 + - - +
186C ARG* 3.5 5.2 + - - +
187C GLN* 3.1 33.7 + - - +
188C ILE* 3.0 26.3 + - - +
242C LEU* 4.5 4.8 - - - +
401C PO4 2.9 25.0 + - - -
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Residues in contact with ARG 185 (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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183C GLY 3.2 7.1 + - - +
184C SER* 1.3 71.7 - - - +
186C ARG* 1.3 59.0 + - + +
188C ILE* 3.4 8.9 + - + +
189C GLN* 2.9 29.9 + - - +
401C PO4 3.0 23.1 + - - +
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Residues in contact with ARG 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C SER* 3.3 3.6 - - - +
185C ARG* 1.3 78.1 - - + +
187C GLN* 1.3 57.1 + - - +
189C GLN* 3.2 10.0 + - + +
190C ARG* 2.9 60.1 + - - +
401C PO4 2.8 45.3 + - - +
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Residues in contact with GLN 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C SER* 3.1 25.5 + - - +
186C ARG* 1.3 78.2 - - - +
188C ILE* 1.3 57.0 + - - +
190C ARG* 3.3 15.1 + - + +
191C LEU* 2.9 59.1 + - + +
242C LEU* 3.9 21.8 - - + +
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Residues in contact with ILE 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183C GLY* 3.8 22.4 - - - +
184C SER 3.0 22.5 + - - +
185C ARG* 3.6 7.6 - - + +
187C GLN* 1.3 77.4 - - - +
189C GLN* 1.3 58.2 + - - +
191C LEU* 3.9 1.0 - - - +
192C GLU* 2.9 51.5 + - + +
239C LEU* 4.3 12.3 - - + -
242C LEU* 3.7 18.4 - - + -
243C LYS* 3.8 40.2 - - + +
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Residues in contact with GLN 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A THR* 5.8 0.2 - - - +
185C ARG 2.9 15.9 + - - +
186C ARG* 3.2 11.4 + - + +
188C ILE* 1.3 79.2 - - - +
190C ARG* 1.3 65.5 + - - +
192C GLU* 3.9 6.3 - - - +
193C GLN* 3.0 63.5 + - - +
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Residues in contact with ARG 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C ARG* 2.9 55.5 + - - +
187C GLN* 3.7 13.6 - - + +
189C GLN* 1.3 83.3 - - + +
191C LEU* 1.3 66.6 + - + +
193C GLN* 3.2 18.7 + - - +
194C LEU* 3.0 21.4 + - - +
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Residues in contact with LEU 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C GLN* 2.9 44.1 + - + +
190C ARG* 1.3 78.5 - - + +
192C GLU* 1.3 57.8 + - - +
194C LEU* 3.2 17.5 + - + +
195C LEU* 2.9 26.7 + - - +
235C LEU* 3.8 25.0 - - + +
238C ARG* 5.9 3.4 - - + -
239C LEU* 3.7 28.0 - - + +
242C LEU* 4.1 16.8 - - + -
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Residues in contact with GLU 192 (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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41A TYR* 2.7 38.0 + - - +
42A ARG 4.8 0.2 - - - +
43A PRO* 3.6 2.2 - - + +
44A GLY* 3.2 34.4 + - - -
45A THR* 2.8 37.9 + - + +
188C ILE* 2.9 35.3 + - + +
189C GLN* 4.0 6.3 - - - +
190C ARG 3.3 0.2 - - - -
191C LEU* 1.3 73.0 - - - +
193C GLN* 1.3 65.1 + - - +
195C LEU* 3.3 6.5 + - + +
196C ALA* 3.0 12.1 + - - +
239C LEU* 4.3 4.7 - - + -
243C LYS* 5.0 1.7 + - - +
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Residues in contact with GLN 193 (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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45A THR* 4.5 6.2 - - + +
189C GLN* 3.0 41.0 + - - +
190C ARG* 3.2 17.8 + - - +
192C GLU* 1.3 76.6 - - - +
194C LEU* 1.3 62.8 + - - +
196C ALA* 3.3 7.3 + - - +
197C LEU* 3.0 24.8 + - - +
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Residues in contact with LEU 194 (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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190C ARG 3.0 12.6 + - - +
191C LEU* 3.2 20.8 + - + +
193C GLN* 1.3 76.0 - - - +
195C LEU* 1.3 57.4 + - - +
197C LEU* 3.1 21.6 + - + +
198C TYR* 2.9 61.0 + - + +
235C LEU* 3.8 17.7 - - + -
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Residues in contact with LEU 195 (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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41A TYR* 4.7 0.2 - - - +
43A PRO* 4.0 28.3 - - + -
45A THR* 4.6 1.8 - - - +
46A VAL* 4.0 20.9 - - + -
51A ILE* 4.6 6.5 - - + -
191C LEU 2.9 12.9 + - - +
192C GLU* 3.4 10.8 - - - +
193C GLN 3.3 0.2 - - - -
194C LEU* 1.3 77.1 - - - +
196C ALA* 1.3 57.3 + - - +
198C TYR* 3.3 7.6 + - - +
199C VAL* 3.0 28.9 + - - +
232C LEU* 3.7 41.6 - - + +
235C LEU* 3.9 20.1 - - + +
236C PHE* 4.2 9.9 - - + +
239C LEU* 4.2 14.1 - - + -
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Residues in contact with ALA 196 (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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45A THR* 3.9 24.5 - - + +
46A VAL* 3.9 10.2 - - - +
192C GLU 3.0 13.1 + - - +
193C GLN* 3.7 9.2 - - - +
195C LEU* 1.3 73.2 - - - +
197C LEU* 1.3 60.5 + - - +
199C VAL* 3.1 6.0 + - - +
200C ALA* 2.9 27.5 + - - +
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Residues in contact with LEU 197 (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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193C GLN 3.0 14.9 + - - +
194C LEU* 3.1 24.9 + - + +
196C ALA* 1.3 75.9 - - - +
198C TYR* 1.3 62.8 + - + +
200C ALA* 3.2 10.5 + - + +
201C GLU* 3.0 23.6 + - - +
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Residues in contact with TYR 198 (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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194C LEU* 2.9 44.3 + - + +
195C LEU* 3.4 9.6 - - - +
197C LEU* 1.3 75.2 - - + +
199C VAL* 1.3 63.5 + - - +
201C GLU* 3.2 6.4 + - + +
202C ILE* 2.9 31.0 + - + +
228C LEU* 3.8 26.6 - - + +
231C LYS* 3.6 32.2 - - + +
232C LEU* 3.8 39.3 - - + -
235C LEU* 3.7 26.5 - - + -
403C PO4 5.7 0.2 + - - -
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Residues in contact with VAL 199 (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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46A VAL* 3.7 34.5 - - + -
50A GLU* 5.5 2.7 - - + -
54A TYR* 3.8 18.4 - - + +
195C LEU 3.0 19.2 + - - +
196C ALA* 3.1 9.4 + - - +
198C TYR* 1.3 75.5 - - - +
200C ALA* 1.3 64.5 + - - +
202C ILE* 3.2 4.7 + - - +
203C ARG* 2.9 50.3 + - - +
232C LEU* 3.7 15.9 - - + -
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Residues in contact with ALA 200 (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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196C ALA 2.9 13.7 + - - +
197C LEU* 3.2 13.9 + - + +
199C VAL* 1.3 75.9 - - - +
201C GLU* 1.3 59.0 + - - +
203C ARG* 3.4 9.4 + - - +
204C ARG* 3.0 27.0 + - - +
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Residues in contact with GLU 201 (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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197C LEU 3.0 14.8 + - - +
198C TYR* 3.8 6.1 - - + +
199C VAL 3.2 0.2 - - - -
200C ALA* 1.3 75.6 - - - +
202C ILE* 1.3 65.2 + - - +
204C ARG* 2.6 48.9 + - - +
205C LEU* 3.0 28.3 + - + +
224C GLN* 5.3 1.6 - - - +
228C LEU* 3.4 25.6 - - + +
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Residues in contact with ILE 202 (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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54A TYR* 3.7 29.4 - - + +
198C TYR 2.9 21.4 + - - +
199C VAL 3.6 4.5 - - - +
201C GLU* 1.3 75.6 - - - +
203C ARG* 1.3 58.8 + - - +
205C LEU* 3.2 9.0 + - - +
206C GLN* 2.9 45.1 + - + +
225C ALA* 4.4 4.9 - - + +
228C LEU* 3.8 21.1 - - + +
229C LYS* 3.8 37.7 - - + +
232C LEU* 3.7 26.2 - - + -
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Residues in contact with ARG 203 (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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50A GLU* 3.2 34.5 + - - +
54A TYR* 4.6 6.5 + - - +
199C VAL* 2.9 40.5 + - + +
200C ALA* 3.8 7.0 - - - +
202C ILE* 1.3 72.1 - - - +
204C ARG* 1.3 65.7 + - - +
206C GLN* 3.3 14.2 + - - +
207C GLU* 3.3 30.8 + - - +
339C HIS* 3.6 48.3 - - + +
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Residues in contact with ARG 204 (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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200C ALA 3.0 15.2 + - - +
201C GLU* 2.6 44.7 + - - +
203C ARG* 1.3 77.1 - - - +
205C LEU* 1.3 81.4 + - - +
207C GLU* 3.2 17.4 + - - +
208C LYS* 3.5 34.9 + - + +
224C GLN* 5.0 2.4 + - - -
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Residues in contact with LEU 205 (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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86A SER* 3.3 16.2 + - - -
201C GLU* 3.0 26.9 + - + +
202C ILE* 3.7 4.0 - - - +
204C ARG* 1.3 102.1 - - - +
206C GLN* 1.3 62.0 + - - +
208C LYS* 3.1 21.1 + - + +
221C ALA* 3.8 29.8 - - + +
224C GLN* 3.8 22.7 - - + +
225C ALA* 3.9 23.1 - - + +
228C LEU* 3.8 26.2 - - + -
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Residues in contact with GLN 206 (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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54A TYR* 4.6 8.3 + - - -
85A GLN* 4.2 1.9 - - - +
86A SER* 3.6 12.6 + - - +
87A ALA* 3.1 41.8 + - + +
202C ILE* 2.9 31.5 + - + +
203C ARG* 3.6 21.8 - - - +
204C ARG 3.3 0.2 - - - -
205C LEU* 1.3 76.6 - - - +
207C GLU* 1.3 58.7 + - - +
225C ALA* 5.1 8.1 - - + -
229C LYS* 3.9 22.0 - - - +
337C GLY 4.9 2.2 + - - -
338C CYS* 3.6 23.7 - - - +
339C HIS* 3.6 19.2 + - + -
340C LEU* 4.1 3.0 - - + +
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Residues in contact with GLU 207 (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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85A GLN* 4.3 11.9 + - - +
203C ARG* 3.3 14.5 + - - +
204C ARG* 3.2 10.6 + - - +
205C LEU 3.1 1.0 - - - -
206C GLN* 1.3 75.3 - - - +
208C LYS* 1.3 64.7 + - - +
209C GLU* 3.5 13.5 + - - +
339C HIS* 2.9 29.8 + - - +
340C LEU* 3.9 22.3 - - + +
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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