Contacts of the helix formed by residues 190 - 211 (chain O) in PDB entry 2I2X
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 190 (chain O).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185O LEU* 3.5 5.1 + - - -
186O TYR* 3.0 16.4 + - + +
189O GLY* 1.3 79.8 - - - +
191O LEU* 1.3 68.1 + - - +
192O GLY 3.2 0.9 - - - -
193O SER* 3.2 2.3 + - - -
194O ILE* 2.9 30.7 + - + +
389O ILE* 4.5 7.6 - - + -
390O TYR* 4.0 35.7 - - - -
436O MET* 5.4 1.1 - - - -
439O PHE* 4.1 11.2 - - - -
440O MET* 3.7 35.9 - - + -
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Residues in contact with LEU 191 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167O GLY 4.5 0.2 - - - -
168O GLY* 3.8 11.9 - - - -
170O GLU* 4.2 0.9 - - - +
171O VAL* 4.1 19.7 - - + -
186O TYR* 2.9 62.3 + - + +
187O SER* 3.4 15.0 - - - +
190O CYS* 1.3 73.8 - - + +
192O GLY* 1.3 62.9 + - - +
194O ILE* 3.3 5.7 + - + +
195O ASP* 3.0 19.1 + - - +
440O MET* 5.2 0.2 - - + -
454O PHE* 4.2 3.6 - - + -
459O TYR* 3.7 53.9 - - + -
461O PHE* 4.0 11.9 - - + -
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Residues in contact with GLY 192 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167O GLY* 3.6 22.1 + - - -
187O SER 2.9 12.4 + - - -
188O ILE* 3.4 11.4 + - - -
190O CYS 3.2 0.4 - - - -
191O LEU* 1.3 76.2 - - - +
193O SER* 1.3 62.6 + - - +
195O ASP* 3.1 1.9 + - - +
196O MET* 2.8 25.0 + - - +
222O GLN* 5.1 0.2 - - - -
253O ARG* 3.9 14.6 - - - -
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Residues in contact with SER 193 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5O ARG* 5.4 0.6 + - - -
188O ILE 3.6 4.4 + - - -
189O GLY 2.6 27.5 + - - -
190O CYS 3.2 3.7 + - - -
192O GLY* 1.3 74.6 - - - +
194O ILE* 1.3 64.0 + - - +
196O MET* 3.2 6.2 + - - +
197O GLU* 3.0 21.5 + - - +
252O PRO* 4.0 5.0 + - - +
253O ARG* 3.7 18.9 + - - +
256O VAL* 3.7 23.1 - - - +
389O ILE* 4.1 22.1 + - - +
392O ARG* 5.2 0.9 + - - -
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Residues in contact with ILE 194 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139O ARG* 3.7 21.7 + - - +
190O CYS 2.9 23.4 + - - +
191O LEU* 3.6 7.4 - - - +
193O SER* 1.3 76.7 - - - +
195O ASP* 1.3 62.8 + - - +
197O GLU* 3.3 14.7 + - - +
198O LEU* 3.4 10.6 + - - +
389O ILE* 3.9 18.2 - - + -
436O MET* 5.6 0.9 - - + -
440O MET* 4.0 15.9 - - + -
459O TYR* 3.7 15.9 - - + +
461O PHE* 3.7 30.3 - - + -
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Residues in contact with ASP 195 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130O ARG* 2.6 46.5 + - - -
138O LEU* 3.7 21.4 - - + +
139O ARG* 4.9 2.9 + - - +
165O SER* 4.4 5.7 + - - -
167O GLY* 3.6 24.4 + - - -
191O LEU 3.0 15.7 + - - +
192O GLY 3.9 0.7 - - - +
194O ILE* 1.3 74.8 - - - +
196O MET* 1.3 64.6 + - - +
198O LEU* 3.2 13.5 + - - +
199O ILE* 3.1 22.5 + - - +
458O ASN 4.8 2.0 - - - +
459O TYR* 4.4 4.0 - - + -
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Residues in contact with MET 196 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165O SER* 3.4 11.2 - - - -
192O GLY* 2.8 17.7 + - - +
193O SER 3.2 9.8 + - - +
195O ASP* 1.3 77.5 + - - +
197O GLU* 1.3 63.9 + - - +
198O LEU 3.3 0.2 + - - -
199O ILE* 4.2 3.1 - - - -
200O TRP* 3.0 50.2 + - + +
217O ASP* 3.3 38.1 - - + +
253O ARG* 3.6 40.6 - - - +
254O SER 4.0 2.7 - - - +
256O VAL* 3.6 13.5 - - + -
257O ALA* 3.6 20.9 - - + +
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Residues in contact with GLU 197 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3O ALA* 3.6 34.9 + - - +
5O ARG* 4.4 15.0 + - - +
193O SER 3.0 9.1 + - - +
194O ILE* 3.3 10.6 + - - +
196O MET* 1.3 77.1 - - - +
198O LEU* 1.3 62.1 + - - +
201O THR* 2.7 38.0 + - - +
256O VAL* 3.3 17.9 - - + +
260O ALA* 4.6 4.0 - - + -
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Residues in contact with LEU 198 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130O ARG* 4.4 0.4 - - - +
138O LEU 4.3 5.8 - - - +
139O ARG* 4.0 36.3 - - + +
143O TYR* 3.4 38.2 + - + +
194O ILE 3.4 8.4 + - - +
195O ASP* 3.2 23.3 + - - +
196O MET 3.2 0.4 - - - -
197O GLU* 1.3 82.4 - - - +
199O ILE* 1.3 62.7 + - - +
201O THR* 3.8 3.6 - - - -
202O ASP* 3.6 20.0 + - - +
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Residues in contact with ILE 199 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130O ARG* 3.4 34.1 - - - +
143O TYR* 3.9 15.0 - - + +
146O PHE* 4.1 19.1 - - + -
147O LEU* 5.2 0.8 - - - +
163O VAL* 4.2 11.0 - - + -
165O SER* 3.4 36.1 - - - +
195O ASP* 3.1 17.0 + - - +
196O MET* 4.2 1.6 - - - -
198O LEU* 1.3 76.2 - - + +
200O TRP* 1.3 83.5 + - + +
202O ASP* 3.4 3.9 + - - +
203O ILE* 2.9 34.9 + - + +
217O ASP* 3.8 0.7 - - - +
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Residues in contact with TRP 200 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161O LEU 3.8 10.5 - - - -
162O SER* 4.1 4.9 - - - -
163O VAL* 3.7 14.1 - - + -
196O MET* 3.0 43.6 + - + +
199O ILE* 1.3 86.7 - - + +
201O THR* 1.3 58.7 + - - +
203O ILE* 3.5 27.4 - - + -
204O SER* 2.8 38.4 + - - -
214O SER* 3.4 26.0 - - - -
216O GLY* 3.2 49.8 - - - -
217O ASP* 2.8 30.7 + - + +
257O ALA* 3.7 15.0 - - + +
260O ALA* 3.8 17.7 - - + -
262O ALA* 4.1 9.0 - - + -
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Residues in contact with THR 201 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3O ALA* 5.0 6.4 - - + +
197O GLU* 2.7 31.0 + - - +
198O LEU* 3.8 4.7 - - - -
200O TRP* 1.3 77.7 - - - +
202O ASP* 1.3 65.1 + - - +
204O SER* 4.0 2.1 - - - -
205O LYS* 3.2 38.9 + - + +
260O ALA* 3.8 19.2 + - - +
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Residues in contact with ASP 202 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143O TYR* 2.5 35.0 + - - +
147O LEU* 4.0 23.6 - - + -
198O LEU* 3.6 11.6 + - - +
199O ILE 3.4 8.1 + - - +
200O TRP 3.3 0.2 - - - -
201O THR* 1.3 79.2 - - - +
203O ILE* 1.3 58.8 + - - +
205O LYS* 3.3 24.1 + - - +
206O ILE* 3.0 33.7 + - - +
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Residues in contact with ILE 203 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146O PHE* 4.7 0.7 - - + -
147O LEU* 5.0 4.3 - - + -
150O PHE* 3.5 55.0 - - + -
161O LEU* 4.5 13.6 - - + +
163O VAL* 4.0 8.7 - - + -
199O ILE* 2.9 34.9 + - + +
200O TRP* 3.5 47.8 - - + -
201O THR 3.5 0.2 - - - -
202O ASP* 1.3 68.7 - - - +
204O SER* 1.3 59.4 + - - +
206O ILE* 3.1 10.5 + - - +
207O ALA* 2.8 26.5 + - - +
214O SER* 4.0 3.6 - - - +
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Residues in contact with SER 204 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200O TRP* 2.8 23.4 + - - -
201O THR 4.0 2.2 - - - -
203O ILE* 1.3 75.9 - - - +
205O LYS* 1.3 57.9 + - - +
207O ALA* 3.2 1.9 + - - +
208O LYS* 2.9 31.2 + - - +
214O SER* 3.1 24.1 + - - -
260O ALA 3.1 18.0 + - - -
261O GLY* 3.1 20.7 - - - -
262O ALA 3.5 1.4 + - - -
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Residues in contact with LYS 205 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201O THR* 3.2 27.5 + - + +
202O ASP* 3.4 28.2 + - - +
203O ILE 3.2 0.6 - - - -
204O SER* 1.3 77.8 - - - +
206O ILE* 1.3 61.2 + - + +
208O LYS* 3.4 6.4 + - + +
209O LYS* 3.1 24.6 + - + +
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Residues in contact with ILE 206 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147O LEU* 3.7 50.5 - - + +
150O PHE* 4.1 13.2 - - + +
151O GLU* 3.3 43.7 - - + +
161O LEU* 4.5 7.0 - - + -
202O ASP 3.0 18.9 + - - +
203O ILE* 3.1 8.0 + - - +
205O LYS* 1.3 73.0 - - + +
207O ALA* 1.3 65.0 + - - +
209O LYS* 3.4 8.0 + - + +
210O THR* 2.8 33.3 + - + +
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Residues in contact with ALA 207 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161O LEU* 4.2 7.0 - - + -
203O ILE 2.8 13.0 + - - +
204O SER 3.2 8.7 + - - +
206O ILE* 1.3 76.6 - - - +
208O LYS* 1.3 62.2 + - - +
210O THR* 3.3 0.9 + - - -
211O GLY* 3.0 4.0 + - - -
212O THR* 2.9 46.7 + - - +
213O ILE 4.0 2.5 - - - -
214O SER* 3.6 35.2 - - - +
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Residues in contact with LYS 208 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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208C LYS* 5.1 7.8 - - - +
209C LYS 6.0 0.9 - - - -
210C THR 5.4 0.2 - - - -
211C GLY* 3.9 30.6 + - - +
204O SER 2.9 16.5 + - - +
205O LYS* 3.7 7.2 - - + +
206O ILE 3.3 0.2 - - - -
207O ALA* 1.3 78.0 - - - +
209O LYS* 1.3 62.7 + - - +
211O GLY* 3.3 12.5 + - - -
212O THR 4.9 0.7 - - - -
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Residues in contact with LYS 209 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151O GLU* 2.7 34.5 + - - +
155O GLU* 4.6 9.0 - - - -
205O LYS* 3.1 17.2 + - + +
206O ILE* 3.9 8.1 - - + +
208O LYS* 1.3 77.4 - - - +
210O THR* 1.3 62.2 + - + +
211O GLY 3.7 0.5 + - - -
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Residues in contact with THR 210 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151O GLU* 4.4 9.6 - - + +
154O ALA* 3.3 27.9 - - + +
155O GLU* 4.0 28.9 - - + +
206O ILE* 2.8 28.4 + - + +
207O ALA 3.3 1.0 + - - -
209O LYS* 1.3 81.0 - - + +
211O GLY* 1.3 61.5 + - - +
212O THR* 3.0 26.9 + - - +
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Residues in contact with GLY 211 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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208C LYS* 4.1 30.0 + - - -
207O ALA 3.0 4.8 + - - -
208O LYS* 3.3 11.3 + - - -
209O LYS 3.4 1.0 + - - -
210O THR* 1.3 77.9 - - - +
212O THR* 1.3 63.6 + - - +
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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
------------------------------------------------------------
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