Contacts of the helix formed by residues 188 - 214 (chain J) in PDB entry 2FRV
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 VAL 188 (chain J).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137J LEU* 3.9 24.2 - - + -
184J LEU* 3.8 22.9 - - + -
185J PRO* 3.0 20.4 + - + +
187J GLU* 1.3 72.8 - - - +
189J ASP* 1.3 66.2 + - - +
190J LEU 3.0 1.2 + - - -
191J ILE* 3.1 12.2 + - + +
192J ALA* 3.0 24.0 + - + +
263J ALA* 5.4 6.1 - - + -
264J VAL* 4.3 13.9 - - + +
267J PHE* 3.9 34.8 - - + -
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Residues in contact with ASP 189 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121J VAL* 3.4 15.0 - - + +
122J ASN* 3.0 45.6 + - - +
125J ASN* 2.8 30.1 + - - +
126J ALA* 3.8 9.0 - - - +
184J LEU* 3.3 22.8 - - - +
185J PRO 3.1 10.3 + - - +
186J ALA 3.6 8.1 - - - +
187J GLU 3.3 0.4 - - - -
188J VAL* 1.3 77.4 - - - +
190J LEU* 1.3 53.6 + - - +
192J ALA* 4.1 1.7 - - - +
193J THR* 2.7 31.7 + - - -
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Residues in contact with LEU 190 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126J ALA* 3.9 21.5 - - + +
129J ALA* 3.8 17.0 - - + -
131J PRO* 4.1 16.6 - - + -
134J ALA* 3.6 26.5 - - + -
151J LEU* 3.7 32.5 - - + +
154J VAL* 4.2 16.4 - - + -
155J GLN* 4.2 16.2 - - + +
186J ALA 3.1 14.5 + - - +
187J GLU 3.4 1.7 + - - +
188J VAL 3.0 1.0 - - - -
189J ASP* 1.3 78.7 - - - +
191J ILE* 1.3 60.1 + - - +
192J ALA 3.2 0.2 - - - -
193J THR* 3.7 1.0 - - - +
194J ALA* 3.0 27.9 + - - +
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Residues in contact with ILE 191 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134J ALA* 3.6 28.9 - - + +
137J LEU* 3.8 26.7 - - + -
138J ALA* 3.8 20.4 - - + +
141J LEU* 5.1 9.0 - - + -
151J LEU* 4.6 7.0 - - + -
187J GLU 3.3 16.9 + - - +
188J VAL* 3.6 13.5 - - + +
190J LEU* 1.3 76.0 - - - +
192J ALA* 1.3 60.8 + - - +
194J ALA* 3.1 7.7 + - - +
195J HIS* 2.9 43.5 + - + +
260J ASP* 3.9 22.4 - - - +
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Residues in contact with ALA 192 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113J TYR* 4.7 6.1 - - + -
117J ALA* 5.9 4.3 - - + +
121J VAL* 4.0 29.6 - - + -
188J VAL* 3.0 17.1 + - + +
189J ASP 4.1 3.8 - - - +
191J ILE* 1.3 83.5 - - + +
193J THR* 1.3 56.1 + - - +
195J HIS* 3.9 6.5 - - - +
196J TYR* 3.0 26.7 + - - +
260J ASP* 4.6 6.7 - - + +
264J VAL* 5.2 10.1 - - + -
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Residues in contact with THR 193 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121J VAL* 4.3 1.9 - - - +
123J VAL* 3.9 31.4 - - + +
126J ALA* 4.1 8.9 - - + +
154J VAL* 3.9 18.2 - - + -
158J VAL* 3.9 20.4 - - + -
189J ASP 2.7 24.1 + - - -
190J LEU* 3.8 6.5 - - - -
191J ILE 3.2 0.6 - - - -
192J ALA* 1.3 75.8 - - - +
194J ALA* 1.3 66.6 + - - +
195J HIS 3.1 0.2 - - - -
196J TYR* 3.5 6.9 + - + +
197J LEU* 3.3 34.5 + - + +
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Residues in contact with ALA 194 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151J LEU* 3.6 25.8 - - + -
154J VAL* 3.8 23.1 - - + +
190J LEU 3.0 17.6 + - - +
191J ILE* 3.1 4.2 + - - +
193J THR* 1.3 80.4 - - - +
195J HIS* 1.3 66.0 + - + +
197J LEU* 3.6 4.2 + - - +
198J GLU* 3.3 21.3 + - - +
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Residues in contact with HIS 195 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113J TYR* 3.6 15.9 - - + +
138J ALA* 5.8 5.5 - - + +
142J SER* 6.0 1.3 - - - -
144J LYS* 5.1 4.6 - - - -
146J THR* 5.3 8.3 + - - +
151J LEU* 6.4 0.2 - - - +
191J ILE* 2.9 30.5 + - + +
192J ALA 4.0 1.3 - - - +
193J THR 3.1 0.2 - - - -
194J ALA* 1.3 81.9 - - + +
196J TYR* 1.3 55.7 + - - +
198J GLU* 3.1 18.9 + - - +
199J ALA* 2.6 36.9 + - - +
252J PHE* 4.2 1.9 - - - -
256J VAL* 3.4 27.4 - - + +
259J THR* 5.5 0.9 - - - -
260J ASP* 2.2 45.8 + - - +
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Residues in contact with TYR 196 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48I LEU* 4.8 7.8 + - - +
113J TYR* 2.9 41.6 - - + -
114J HIS* 3.2 46.8 + + - +
117J ALA* 5.1 3.4 - - + -
118J LEU* 4.3 28.4 - - + +
123J VAL* 6.1 1.8 - - + -
169J ILE* 4.0 22.8 - - + +
170J PHE* 5.3 9.0 - + - -
192J ALA 3.0 18.5 + - - +
193J THR* 3.8 9.4 - - + +
194J ALA 3.4 0.2 - - - -
195J HIS* 1.3 73.6 - - - +
197J LEU* 1.3 79.6 + - + +
199J ALA 3.6 0.2 + - - -
200J LEU* 3.4 21.3 + - + +
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Residues in contact with LEU 197 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33I ASP* 4.6 11.3 - - + +
37I LEU* 4.5 22.0 - - + -
154J VAL* 3.9 24.7 - - + -
157J LYS* 4.3 29.2 - - + +
158J VAL* 5.9 1.8 - - + -
193J THR* 3.3 22.9 + - + +
194J ALA* 4.0 5.8 - - - +
195J HIS 3.3 0.2 - - - -
196J TYR* 1.3 90.4 - - + +
198J GLU* 1.3 63.1 + - - +
200J LEU* 3.1 31.0 + - + +
201J ARG* 3.7 9.1 + - - +
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Residues in contact with GLU 198 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144J LYS* 2.5 34.8 + - - -
194J ALA 3.3 11.0 + - - +
195J HIS* 3.1 27.4 + - - +
197J LEU* 1.3 76.2 - - - +
199J ALA* 1.3 63.0 - - - +
200J LEU 3.1 0.2 - - - -
201J ARG* 3.1 19.2 + - + +
202J VAL* 3.2 20.8 + - + +
252J PHE* 3.7 15.3 - - + -
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Residues in contact with ALA 199 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109J LEU* 4.6 6.0 - - + +
113J TYR* 3.5 31.9 - - + -
114J HIS* 3.7 18.6 - - + +
195J HIS 2.6 20.2 + - - +
196J TYR 3.9 0.4 - - - +
198J GLU* 1.3 70.7 - - - +
200J LEU* 1.3 58.3 + - - +
201J ARG 3.2 0.4 - - - -
202J VAL* 3.8 5.3 - - - +
203J GLN* 2.9 31.2 + - - +
252J PHE* 4.1 11.8 - - + -
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Residues in contact with LEU 200 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I LEU* 5.3 7.6 - - + -
31I TYR* 5.7 0.2 - - - -
32I VAL* 3.8 31.8 - - + +
33I ASP* 4.3 25.4 - - + +
36I ILE* 6.3 2.0 - - + -
48I LEU* 6.5 1.1 - - + -
114J HIS* 3.5 25.1 - - + +
196J TYR* 3.4 30.5 + - + +
197J LEU* 3.1 19.7 + - + +
198J GLU 3.1 0.6 - - - -
199J ALA* 1.3 78.3 - - - +
201J ARG* 1.3 57.8 + - - +
203J GLN* 2.9 34.3 + - + +
204J VAL* 3.7 5.2 - - - +
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Residues in contact with ARG 201 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31I TYR* 3.5 46.3 - - + +
33I ASP* 2.7 40.2 + - - -
34I GLU* 3.9 14.1 + - - +
197J LEU 4.1 10.3 - - - +
198J GLU* 3.1 10.9 + - + +
200J LEU* 1.3 77.4 - - - +
202J VAL* 1.3 66.0 + - + +
203J GLN 3.3 0.9 - - - -
204J VAL* 3.4 17.7 + - - +
205J LYS* 3.6 16.1 + - - +
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Residues in contact with VAL 202 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109J LEU* 3.8 23.1 - - + -
198J GLU* 3.2 20.3 + - + +
199J ALA* 4.1 4.5 - - - +
201J ARG* 1.3 74.9 - - + +
203J GLN* 1.3 68.8 + - - +
205J LYS* 2.8 24.3 + - + +
206J ALA* 3.3 8.5 + - - +
248J GLU 5.1 0.9 - - - +
249J VAL* 3.9 29.4 - - + -
252J PHE* 3.7 38.1 - - + -
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Residues in contact with GLN 203 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I LEU* 2.8 38.0 + - - +
26I ARG* 3.1 28.0 + - - +
32I VAL* 5.4 0.4 - - - +
106J HIS* 3.1 35.7 + - + +
109J LEU* 4.4 8.6 - - + +
110J VAL* 3.5 30.0 - - + +
114J HIS* 4.5 2.7 - - + -
199J ALA 2.9 18.8 + - - +
200J LEU* 2.9 32.4 + - + +
202J VAL* 1.3 76.3 - - - +
204J VAL* 1.3 66.4 + - - +
206J ALA* 3.4 3.3 + - - -
207J ALA* 3.2 9.4 + - - +
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Residues in contact with VAL 204 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I LEU 3.7 9.9 - - - +
26I ARG* 4.4 12.5 - - + +
27I THR 4.4 9.4 - - - +
28I VAL* 3.9 15.0 - - + -
31I TYR* 4.5 14.4 - - + +
234I ASN* 5.2 1.0 + - - -
235I GLN* 4.7 2.2 + - - +
200J LEU 3.7 8.3 - - - +
201J ARG* 3.4 10.7 + - - +
202J VAL 2.8 0.6 + - - -
203J GLN* 1.3 96.7 - - - +
205J LYS* 1.3 59.9 + - + +
207J ALA* 3.6 7.0 + - - +
208J ARG* 3.2 50.6 + - - +
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Residues in contact with LYS 205 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201J ARG* 3.8 15.6 + - - +
202J VAL* 2.8 16.8 + - + +
204J VAL* 1.3 78.8 - - + +
206J ALA* 1.3 56.2 + - - +
207J ALA 3.3 0.2 - - - -
208J ARG* 3.4 18.8 + - - +
209J ALA* 3.2 26.2 + - - +
244J LYS* 5.9 0.2 - - - +
245J LEU* 4.0 23.0 - - + +
248J GLU* 2.7 41.8 + - + +
249J VAL* 3.8 14.4 - - + -
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Residues in contact with ALA 206 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102J ALA* 4.3 10.4 - - - +
105J MET* 5.0 1.6 - - + -
106J HIS* 3.6 36.4 - - + +
109J LEU* 5.2 1.8 - - + -
202J VAL 3.3 7.2 + - - +
203J GLN* 3.7 5.2 - - - +
205J LYS* 1.3 74.3 - - - +
207J ALA* 1.3 64.3 + - - +
209J ALA* 3.9 6.5 - - - +
210J MET* 3.3 21.0 + - - +
249J VAL* 4.0 25.5 - - + +
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Residues in contact with ALA 207 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I ARG* 3.3 36.8 - - - +
234I ASN* 3.9 7.6 - - - +
106J HIS* 4.0 8.1 - - - +
203J GLN 3.2 13.3 + - - +
204J VAL 3.7 4.5 - - - +
206J ALA* 1.3 79.7 - - - +
208J ARG* 1.3 59.3 + - - +
210J MET* 3.3 5.3 + - - +
211J ALA* 3.1 26.0 + - - +
217J ASN* 3.7 16.7 - - - +
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Residues in contact with ARG 208 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I VAL* 4.1 5.1 - - - +
31I TYR* 5.7 0.6 + - - -
234I ASN* 2.8 31.5 + - + +
235I GLN* 2.4 42.8 - - - +
236I VAL* 3.6 19.5 - - + +
204J VAL* 3.2 33.4 + - - +
205J LYS* 3.7 24.7 - - - +
206J ALA 3.4 0.2 - - - -
207J ALA* 1.3 73.9 - - - +
209J ALA* 1.3 63.0 + - - +
211J ALA* 3.2 4.9 + - - +
212J ILE* 3.2 18.4 + - - +
241J GLU* 5.5 0.7 - - - -
245J LEU* 3.7 29.3 - - + +
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Residues in contact with ALA 209 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102J ALA* 5.2 3.6 - - + -
205J LYS 3.2 17.3 + - - +
206J ALA* 3.9 8.1 - - - +
207J ALA 3.3 0.2 - - - -
208J ARG* 1.3 71.8 - - - +
210J MET* 1.3 66.2 + - - +
212J ILE* 3.0 19.4 + - - +
213J PHE 3.8 1.0 + - - -
242J PHE* 3.2 43.8 - - + +
245J LEU* 4.0 17.5 - - + -
246J TYR* 4.8 5.2 - - - +
249J VAL* 6.1 0.2 - - + -
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Residues in contact with MET 210 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69J THR* 3.8 9.0 - - + -
70J TYR* 3.4 33.4 - - + -
99J THR* 4.0 20.7 - - + +
102J ALA* 4.0 15.0 - - + +
103J GLN* 3.5 38.1 - - + +
106J HIS* 5.8 1.8 - - - -
206J ALA 3.3 12.3 + - - +
207J ALA* 3.3 9.4 + - - +
208J ARG 3.2 0.4 - - - -
209J ALA* 1.3 82.1 - - - +
211J ALA* 1.3 48.1 + - - +
213J PHE* 3.4 4.4 + - - +
214J GLY* 2.7 31.2 + - - -
217J ASN* 3.4 22.0 - - + +
220J THR* 3.5 16.6 - - + -
242J PHE* 5.0 0.9 - - - -
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Residues in contact with ALA 211 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
233I PHE 4.7 0.2 - - - +
234I ASN* 3.4 28.5 - - + +
236I VAL* 3.6 14.1 - - + -
237I ASN* 3.1 21.3 + - - +
207J ALA 3.1 9.7 + - - +
208J ARG 3.4 11.4 - - - +
209J ALA 3.2 0.6 - - - -
210J MET* 1.3 73.2 - - - +
212J ILE* 1.3 63.4 + - - +
214J GLY* 3.8 3.4 - - - +
215J ALA 3.2 12.7 + - - +
216J LYS* 4.0 14.6 - - - +
217J ASN* 4.8 0.2 - - - +
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Residues in contact with ILE 212 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236I VAL* 3.9 13.7 - - + -
237I ASN* 3.1 21.0 + - - +
208J ARG 3.2 14.5 + - - +
209J ALA* 3.0 10.7 + - - +
211J ALA* 1.3 76.5 - - - +
213J PHE* 1.3 63.8 - - + +
230J ASN* 3.3 6.9 + - - -
233J SER* 3.6 11.4 - - - -
238J ARG* 3.4 45.3 + - + +
241J GLU* 3.8 17.3 - - + +
242J PHE* 3.7 37.5 - - + +
245J LEU* 3.9 15.3 - - + -
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Residues in contact with PHE 213 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95J MET* 4.1 25.6 - - + -
98J LEU* 3.8 32.1 - - + -
99J THR* 3.3 22.0 - - - +
209J ALA 3.8 1.1 + - - -
210J MET* 3.4 4.2 + - - +
212J ILE* 1.3 81.7 - - + +
214J GLY* 1.3 57.5 + - - +
222J PHE* 3.2 19.5 - - + +
230J ASN* 2.7 22.3 + - - +
233J SER* 3.4 34.1 - - - -
239J ILE* 4.6 7.9 - - + -
242J PHE* 3.1 51.8 - + + -
429J LEU* 4.3 8.5 - - + -
432J LEU* 4.4 7.4 - - + -
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Residues in contact with GLY 214 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99J THR* 4.4 1.5 + - - -
210J MET 2.7 23.0 + - - -
211J ALA 4.1 0.2 - - - -
213J PHE* 1.3 71.6 - - - +
215J ALA* 1.3 63.2 + - - +
216J LYS 2.9 11.6 + - - -
220J THR* 3.3 15.8 - - - -
221J GLN 3.0 19.5 + - - -
222J PHE* 3.7 17.5 - - - -
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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) + - + + + + + -
------------------------------------------------------------
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).
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