Contacts of the helix formed by residues 150 - 179 (chain J) in PDB entry 4DVQ
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 150 (chain J).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145J ASN 3.0 8.7 + - - -
146J PRO* 2.5 36.5 + - - +
149J LEU* 1.3 78.0 - - - +
151J PRO* 1.4 62.6 - - - +
152J LYS* 2.8 13.6 + - - +
153J ALA* 2.6 37.1 + - - +
154J VAL* 3.1 4.3 + - - -
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Residues in contact with PRO 151 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149J LEU 3.6 4.5 - - - +
150J SER* 1.4 84.1 - - - +
152J LYS* 1.3 75.3 + - + +
154J VAL* 3.6 13.0 - - + +
155J GLN* 2.9 37.8 + - + +
454J ARG* 4.4 20.4 - - - +
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Residues in contact with LYS 152 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146J PRO 5.5 0.7 - - - +
150J SER* 2.8 13.0 + - - +
151J PRO* 1.3 92.8 - - + +
153J ALA* 1.3 65.3 + - - +
155J GLN* 4.0 16.3 + - - +
156J ARG* 3.6 26.0 + - - +
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Residues in contact with ALA 153 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146J PRO 3.5 20.6 + - - +
147J ASP* 3.8 23.1 - - - +
148J VAL 4.1 2.5 - - - +
150J SER* 2.6 24.3 + - - +
152J LYS* 1.3 69.8 - - - +
154J VAL* 1.3 62.5 + - - +
156J ARG* 3.0 16.6 + - - +
157J PHE* 3.1 28.5 + - + +
286J TYR* 4.4 5.1 + - - +
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Residues in contact with VAL 154 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149J LEU 4.6 1.8 - - - +
150J SER 3.1 5.9 + - - +
151J PRO* 3.5 9.8 + - + +
153J ALA* 1.3 76.1 - - - +
155J GLN* 1.3 70.1 + - + +
156J ARG 3.0 0.3 + - - -
157J PHE* 3.6 21.5 - - + -
158J LEU* 2.8 55.8 + - + +
356J GLN* 6.3 0.2 - - + -
359J THR* 5.2 7.2 - - + +
454J ARG* 3.3 48.2 - - + +
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Residues in contact with GLN 155 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151J PRO* 2.9 28.7 + - + +
152J LYS* 4.1 20.7 - - - +
153J ALA 3.4 0.2 - - - -
154J VAL* 1.3 76.0 - - + +
156J ARG* 1.3 60.2 + - + +
159J PRO* 3.2 25.1 - - - +
356J GLN* 3.8 26.5 - - + +
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Residues in contact with ARG 156 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152J LYS 3.6 14.1 + - - +
153J ALA* 3.0 9.4 + - - +
155J GLN* 1.3 82.8 - - + +
157J PHE* 1.3 58.3 + - - +
159J PRO* 3.8 7.4 - - - +
160J MET* 4.1 5.9 - - - +
284J GLN 5.1 2.8 + - - -
285J HIS* 4.5 5.9 - - - +
286J TYR* 3.5 65.2 - - + +
292J GLU* 3.7 19.5 + - - -
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Residues in contact with PHE 157 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148J VAL 3.9 17.5 - - - -
153J ALA* 3.1 30.1 + - + -
154J VAL* 3.0 33.7 + - + -
156J ARG* 1.3 74.1 - - - +
158J LEU* 1.3 70.9 + - - +
159J PRO* 3.3 2.9 - - - -
160J MET* 3.2 35.5 + - + +
161J VAL* 3.2 16.1 + - + +
203J ALA* 4.2 8.1 - - + -
286J TYR* 3.7 17.0 - - - +
289J ILE* 4.0 20.4 - - + -
454J ARG 4.5 2.7 - - - -
455J LEU* 3.9 44.0 - - + -
458J ALA* 4.6 7.2 - - + -
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Residues in contact with LEU 158 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154J VAL* 2.8 38.8 + - + +
155J GLN 4.6 1.1 - - - +
157J PHE* 1.3 86.0 - - + +
159J PRO* 1.3 59.0 - - + +
161J VAL* 3.3 6.1 + - - +
162J ASP* 2.9 24.6 + - - +
355J PRO* 3.3 40.6 - - + +
356J GLN* 3.6 13.9 - - - +
358J ALA* 5.0 1.8 - - + -
359J THR* 4.1 22.4 - - + +
458J ALA* 4.4 15.3 - - + -
462J LEU* 3.7 19.9 - - + +
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Residues in contact with PRO 159 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155J GLN 3.2 20.4 - - - +
156J ARG 3.8 7.9 - - - +
157J PHE 3.4 3.8 - - - -
158J LEU* 1.3 94.8 - - + +
160J MET* 1.3 60.3 - - + +
162J ASP* 3.6 3.8 + - - +
163J ALA* 3.2 20.1 + - - +
355J PRO* 4.2 18.5 - - + +
356J GLN* 3.5 27.6 - - + +
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Residues in contact with MET 160 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156J ARG 4.5 5.2 - - - +
157J PHE* 3.3 35.7 - - + +
158J LEU 3.1 0.2 - - - -
159J PRO* 1.3 77.5 - - + +
161J VAL* 1.3 68.9 + - + +
163J ALA* 3.0 22.5 + - - +
164J VAL 3.3 3.5 + - - -
202J LEU* 3.4 42.6 - - + +
203J ALA* 3.7 20.2 - - - +
206J GLY* 5.1 4.3 - - - -
286J TYR* 3.4 29.2 - - + +
287J THR* 5.2 1.3 - - - -
288J GLY* 4.4 4.5 - - - -
180K ALA* 5.4 4.9 - - - -
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Residues in contact with VAL 161 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157J PHE* 3.3 21.1 - - + +
158J LEU* 3.5 9.2 - - - +
160J MET* 1.3 75.6 - - - +
162J ASP* 1.3 62.6 + - - +
164J VAL* 3.0 19.5 + - - +
165J ALA* 3.0 11.4 + - - +
195J TYR* 3.8 8.6 + - - +
199J ALA* 4.3 10.7 + - + +
202J LEU* 5.1 0.7 - - - -
203J ALA* 4.3 9.0 - - + -
455J LEU* 4.0 24.7 - - + -
458J ALA* 4.2 2.5 - - + -
459J GLU* 3.7 39.9 - - + +
462J LEU* 4.1 9.9 - - + -
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Residues in contact with ASP 162 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158J LEU 2.9 16.3 + - - +
159J PRO 3.6 6.8 - - - +
160J MET 3.2 0.2 - - - -
161J VAL* 1.3 74.3 - - - +
163J ALA* 1.3 58.6 + - - +
165J ALA* 3.4 4.4 + - - +
166J ARG* 2.9 44.7 + - - +
351J ILE* 4.4 6.5 - - - +
355J PRO* 3.6 30.0 - - + +
462J LEU* 3.5 27.3 - - + +
466J HIS* 2.9 26.9 + - - -
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Residues in contact with ALA 163 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159J PRO 3.2 12.1 + - - +
160J MET* 3.0 15.3 + - - +
162J ASP* 1.3 77.8 - - - +
164J VAL* 1.3 61.1 + - + +
166J ARG* 3.3 9.9 + - - +
167J ASP* 3.0 34.4 + - - +
202J LEU* 5.0 4.0 - - + -
208J ARG* 4.9 6.7 - - - +
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Residues in contact with VAL 164 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160J MET 3.8 2.2 - - - +
161J VAL 3.0 7.0 + - - +
163J ALA* 1.3 73.3 - - - +
165J ALA* 1.3 64.3 + - - +
167J ASP* 3.6 2.4 + - - +
168J PHE* 3.1 21.5 + - - +
195J TYR* 3.7 22.7 - - + -
198J GLU* 3.5 31.6 - - + -
199J ALA* 3.8 14.4 - - - +
202J LEU* 3.5 30.3 - - + -
208J ARG* 3.6 24.2 - - - +
212J VAL* 3.8 7.9 - - + +
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Residues in contact with ALA 165 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161J VAL 3.0 11.9 + - - +
162J ASP 3.7 7.4 - - - +
164J VAL* 1.3 75.6 - - - +
166J ARG* 1.3 63.9 + - - +
168J PHE* 3.3 6.6 + - - +
169J SER* 3.3 20.6 + - - -
195J TYR* 3.7 19.8 - - - +
462J LEU* 3.8 37.7 - - + +
463J LEU* 3.9 6.0 - - - +
466J HIS* 3.9 8.9 - - + +
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Residues in contact with ARG 166 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162J ASP* 2.9 33.1 + - - +
163J ALA* 3.5 8.5 - - - +
164J VAL 3.3 0.2 - - - -
165J ALA* 1.3 72.9 - - - +
167J ASP* 1.3 68.5 + - - +
169J SER* 3.1 6.6 + - - -
170J GLN* 3.0 46.1 + - - +
351J ILE 5.8 0.2 + - - -
352J SER* 2.8 40.6 + - - +
466J HIS* 3.3 34.7 + - + +
469J LYS* 4.1 16.6 - - - +
470J HIS* 6.1 2.4 - - - -
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Residues in contact with ASP 167 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163J ALA* 3.0 12.5 + - - +
164J VAL 3.7 3.4 - - - +
166J ARG* 1.3 81.1 - - - +
168J PHE* 1.3 55.3 + - - +
170J GLN* 4.0 10.3 - - - +
171J ALA* 2.9 32.1 + - - +
208J ARG* 2.5 46.7 + - - +
212J VAL* 3.6 9.9 - - + +
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Residues in contact with PHE 168 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164J VAL 3.1 13.7 + - - +
165J ALA* 3.4 13.5 - - - +
166J ARG 3.2 0.4 - - - -
167J ASP* 1.3 77.0 - - - +
169J SER* 1.3 66.8 + - - +
171J ALA* 3.3 3.7 + - + +
172J LEU* 3.0 50.3 + - + +
188J VAL* 4.7 6.7 - - + -
191J SER* 3.9 38.6 - - - -
192J ILE* 3.6 24.9 - - + -
195J TYR* 4.1 18.2 - - + -
212J VAL* 3.5 17.0 - - + +
213J GLY 6.1 0.2 - - - -
327J LEU* 6.3 0.2 - - + -
463J LEU* 3.9 21.1 - - + -
467J VAL* 4.4 13.5 - - + -
499J PHE* 5.9 1.6 - + - -
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Residues in contact with SER 169 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165J ALA 3.3 5.3 + - - -
166J ARG* 3.1 8.3 + - - -
168J PHE* 1.3 82.6 - - - +
170J GLN* 1.3 59.2 + - - +
172J LEU* 3.3 5.6 + - - +
173J LYS* 2.8 30.3 + - - +
466J HIS* 3.2 35.7 + - - +
467J VAL* 3.4 12.1 + - - +
470J HIS* 4.0 21.2 + - - -
471J PHE* 3.8 8.8 - - - -
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Residues in contact with GLN 170 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166J ARG* 3.0 39.7 + - - +
167J ASP* 4.1 10.0 - - - +
169J SER* 1.3 75.5 - - - +
171J ALA* 1.3 68.6 + - - +
173J LYS* 3.2 12.0 + - + +
174J LYS* 3.1 23.6 + - - +
470J HIS* 5.9 5.6 - - + -
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Residues in contact with ALA 171 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167J ASP 2.9 19.7 + - - +
168J PHE* 3.4 6.5 - - - +
170J GLN* 1.3 76.6 - - - +
172J LEU* 1.3 63.5 + - - +
174J LYS* 3.3 14.5 + - - +
175J LYS* 3.4 14.4 + - - +
213J GLY* 3.6 33.2 - - - +
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Residues in contact with LEU 172 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168J PHE* 3.0 46.5 + - + +
169J SER 3.6 5.4 - - - +
171J ALA* 1.3 76.6 - - - +
173J LYS* 1.3 57.7 + - - +
175J LYS* 3.3 6.0 + - + +
176J VAL* 3.0 43.1 + - + +
184J LEU* 4.1 22.0 - - + -
186J LEU* 5.2 5.6 - - + -
188J VAL* 5.4 2.5 - - + -
467J VAL* 5.2 2.0 - - + -
471J PHE* 3.8 18.6 - - + -
499J PHE* 4.3 36.1 - - + -
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Residues in contact with LYS 173 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169J SER 2.8 16.3 + - - +
170J GLN* 3.2 13.9 + - + +
172J LEU* 1.3 75.0 - - - +
174J LYS* 1.3 60.0 + - - +
176J VAL* 3.3 1.2 + - - +
177J LEU* 3.0 54.7 + - + +
470J HIS* 3.6 57.8 + - + +
471J PHE* 3.6 14.9 - - + -
501J ALA* 4.4 13.3 - - + +
502J ILE* 5.0 2.8 + - - +
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Residues in contact with LYS 174 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170J GLN 3.1 11.7 + - - +
171J ALA* 3.5 12.3 - - - +
173J LYS* 1.3 74.2 - - - +
175J LYS* 1.3 67.9 + - - +
177J LEU* 3.5 4.4 + - - +
178J GLN* 3.4 44.1 + - - +
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Residues in contact with LYS 175 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208G ARG 4.2 8.2 + - - +
209G LEU* 3.6 27.9 + - - +
210G GLY* 5.0 2.0 - - - -
171J ALA 3.4 8.3 + - - +
172J LEU* 3.3 12.6 + - - +
174J LYS* 1.3 78.8 - - - +
176J VAL* 1.3 63.2 + - - +
178J GLN* 3.1 34.2 + - - +
179J ASN* 3.8 12.2 + - - +
184J LEU* 4.1 32.5 - - + +
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Residues in contact with VAL 176 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172J LEU* 3.0 23.7 + - + +
173J LYS* 3.6 7.4 - - - +
174J LYS 3.3 0.2 - - - -
175J LYS* 1.3 75.7 - - - +
177J LEU* 1.3 58.7 + - + +
179J ASN* 3.1 27.7 + - - +
182J GLY* 3.2 34.3 - - - +
183J SER* 3.3 13.0 - - - +
184J LEU* 3.9 16.4 - - + -
471J PHE* 3.7 18.8 - - + -
499J PHE 3.8 12.1 - - - +
501J ALA* 4.1 15.5 - - + +
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Residues in contact with LEU 177 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173J LYS* 3.0 39.2 + - + +
174J LYS* 4.1 4.9 - - - +
175J LYS 3.3 0.2 - - - -
176J VAL* 1.3 76.6 - - + +
178J GLN* 1.3 62.8 + - - +
179J ASN 3.2 6.2 - - - +
182J GLY* 4.9 6.7 - - - -
501J ALA* 3.9 27.8 - - + -
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Residues in contact with GLN 178 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202G LEU* 5.6 2.3 - - - +
206G GLY 4.9 0.3 - - - +
208G ARG* 3.4 37.6 + - + +
210G GLY* 5.7 5.1 + - - -
174J LYS* 3.4 38.4 + - - +
175J LYS* 3.1 32.6 + - - +
177J LEU* 1.3 77.3 - - - +
179J ASN* 1.3 61.3 + - - +
180J ALA 4.1 0.9 + - - -
----------------------------------------------------------
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Residues in contact with ASN 179 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206G GLY 3.7 6.3 - - - +
207G GLU* 3.6 22.3 + - + -
208G ARG 3.0 32.1 + - - +
175J LYS* 4.0 11.1 + - - +
176J VAL 3.1 9.0 + - - +
177J LEU* 4.2 4.5 - - - +
178J GLN* 1.3 79.1 - - - +
180J ALA* 1.3 61.0 + - - +
181J ARG* 3.2 3.6 - - + +
182J GLY* 2.8 24.4 + - - -
183J SER 3.2 23.4 + - - +
184J LEU* 3.6 25.1 - - - +
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il