Contacts of the helix formed by residues 191 - 209 (chain B) in PDB entry 4HNI
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 191 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125B ILE* 3.5 18.8 - - - +
156B TYR* 5.2 0.9 - - - -
164B HIS* 3.8 16.2 - - - -
190B GLN* 1.3 74.4 + - - +
192B ARG* 1.3 65.6 + - - +
193B ARG* 3.0 26.9 + - - +
194B ASP* 3.1 16.0 + - - +
195B ASP* 3.9 4.2 + - - +
260B PHE* 2.8 38.1 + - - -
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Residues in contact with ARG 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B HIS* 3.4 51.7 + - + +
125B ILE* 3.6 8.0 - - + +
156B TYR* 3.0 50.0 + - + -
157B ARG* 4.0 1.8 - - - +
164B HIS* 4.5 6.3 + - - -
191B SER* 1.3 76.6 - - - +
193B ARG* 1.3 61.8 + - - +
194B ASP 3.4 0.3 + - - -
195B ASP 3.4 6.9 + - - -
196B LEU* 3.6 8.8 + - - +
261B ASP 3.4 12.3 + - - -
262B ASP 3.3 23.3 + - - +
263B LYS* 3.6 18.1 - - - +
264B PRO* 4.0 13.0 - - + +
266B TYR* 3.9 7.3 + - - -
304B SO4 3.2 41.8 + - - -
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Residues in contact with ARG 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B TYR* 4.2 4.8 + - - -
183B ASN* 3.7 29.7 - - - +
188B ILE* 3.9 18.2 - - - +
189B GLU 4.6 1.4 + - - -
191B SER* 3.0 19.6 + - - +
192B ARG* 1.3 78.5 - - - +
194B ASP* 1.3 70.0 + - - +
196B LEU* 3.2 7.7 + - - +
197B GLU* 3.0 26.4 + - - +
255B CYS* 4.4 8.9 - - - +
258B LEU* 3.1 60.5 + - + -
259B ARG* 3.7 8.5 - - - +
260B PHE* 3.3 39.9 + - - +
262B ASP 5.4 2.3 + - - +
264B PRO* 4.5 1.6 - - - +
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Residues in contact with ASP 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B SER* 2.4 38.0 + - - +
183B ASN* 4.2 11.9 + - - +
184B THR* 4.3 6.5 - - - +
189B GLU 3.9 3.5 - - - +
190B GLN* 3.4 23.1 - - + +
191B SER* 3.1 30.3 + - - +
192B ARG 3.3 0.8 - - - -
193B ARG* 1.3 91.5 + - - +
195B ASP* 1.3 65.8 + - - +
197B GLU* 3.8 4.4 - - - +
198B SER* 3.0 28.4 + - - -
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Residues in contact with ASP 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116B ILE* 3.9 13.9 - - + +
120B HIS* 2.9 30.9 + - - +
125B ILE* 3.3 10.3 - - - +
126B HIS* 2.9 28.8 + - - +
127B ARG* 2.9 27.6 + - - -
129B VAL* 3.6 16.8 - - + +
190B GLN* 5.0 1.7 + - - -
191B SER 3.9 2.4 + - - -
192B ARG 3.4 3.9 + - - +
193B ARG 3.4 0.4 - - - -
194B ASP* 1.3 76.9 - - - +
196B LEU* 1.3 59.2 + - - +
198B SER* 3.4 5.0 + - - -
199B LEU* 3.1 26.0 + - - +
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Residues in contact with LEU 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113B ILE* 4.5 11.9 - - + -
116B ILE* 4.4 17.7 - - + -
192B ARG 3.6 7.1 + - - +
193B ARG* 3.2 6.6 + - - +
194B ASP 3.2 0.6 - - - -
195B ASP* 1.3 77.9 - - - +
197B GLU* 1.3 62.4 + - - +
199B LEU* 3.5 10.2 + - + -
200B GLY 3.1 4.5 + - - -
251B TYR* 2.7 42.7 + - - +
255B CYS* 3.4 14.8 - - - -
258B LEU* 4.6 4.7 - - + -
264B PRO* 3.3 41.3 - - + -
266B TYR* 3.8 15.5 - - + -
269B LEU* 4.2 18.6 - - + -
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Residues in contact with GLU 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181B SER* 3.6 21.0 - - - -
182B ILE* 3.2 18.8 + - - +
183B ASN* 5.3 5.0 + - - -
193B ARG* 3.0 14.5 + - - +
194B ASP* 3.3 10.1 + - - +
196B LEU* 1.3 73.8 - - - +
198B SER* 1.3 65.9 + - - +
200B GLY* 3.0 10.7 + - - -
201B TYR* 3.0 41.9 + - + +
252B LEU* 3.8 8.9 - - + +
255B CYS* 3.7 15.1 - - + +
256B ARG* 3.6 37.1 + - + +
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Residues in contact with SER 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B ARG 6.2 0.3 - - - -
129B VAL* 3.8 24.4 + - - -
179B TYR* 2.6 30.1 + - - +
180B ALA* 4.1 1.4 - - - -
181B SER* 4.0 7.1 + - - -
194B ASP 3.0 14.0 + - - -
195B ASP* 3.5 9.8 - - - -
197B GLU* 1.3 77.1 - - - +
199B LEU* 1.3 54.9 + - - +
201B TYR* 2.8 24.1 + - - +
202B VAL* 2.8 17.5 + - - +
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Residues in contact with LEU 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109B ALA 4.8 0.7 - - - +
112B MET* 3.8 39.7 - - + -
113B ILE* 3.7 32.5 - - + +
116B ILE* 3.8 24.0 - - + -
129B VAL* 4.0 12.0 - - + +
195B ASP 3.1 10.8 + - - +
196B LEU* 3.6 9.2 - - + +
198B SER* 1.3 77.4 - - - +
200B GLY* 1.3 57.7 + - - +
202B VAL* 3.6 5.1 - - + +
203B LEU* 3.0 48.4 + - + +
251B TYR* 3.4 17.9 - - + +
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Residues in contact with GLY 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B LEU 3.1 6.9 + - - -
197B GLU 3.0 9.3 + - - -
198B SER 3.0 1.4 - - - -
199B LEU* 1.3 77.6 - - - +
201B TYR* 1.3 61.3 + - - +
203B LEU* 3.4 6.0 + - - +
204B MET* 3.2 26.0 + - - +
251B TYR* 3.5 24.2 - - - -
252B LEU* 3.7 15.2 - - - +
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Residues in contact with TYR 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179B TYR* 3.6 35.4 - - + -
180B ALA 3.2 22.0 - - - -
181B SER* 4.3 0.2 - - - -
182B ILE* 3.8 6.2 - - - +
197B GLU* 3.0 36.4 + - + -
198B SER 2.8 10.2 + - - +
200B GLY* 1.3 69.5 - - - +
202B VAL* 1.3 62.1 + - - +
204B MET* 3.4 3.2 + - - +
205B TYR* 2.8 29.7 + - - +
211B LEU* 3.8 12.8 - - + +
213B TRP* 3.7 24.0 - + - -
232B LYS* 3.6 15.3 - - + +
240B LEU* 4.3 12.6 - - + -
252B LEU* 3.7 19.1 - - + -
256B ARG* 2.7 30.8 + - - -
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Residues in contact with VAL 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B MET* 4.1 14.8 - - + -
129B VAL* 3.9 7.2 - - + +
130B LYS* 3.8 23.1 - - - +
131B PRO* 4.0 12.3 - - + -
179B TYR* 3.7 18.2 - - + -
198B SER 2.8 19.0 + - - +
199B LEU* 3.6 12.8 - - + +
201B TYR* 1.3 77.2 - - - +
203B LEU* 1.3 58.8 + - + +
205B TYR* 2.9 25.6 - - - +
206B PHE* 2.9 41.8 + - + -
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Residues in contact with LEU 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105B VAL* 4.1 18.3 - - + +
108B LEU* 5.5 0.4 - - + -
109B ALA* 3.9 28.7 - - + +
112B MET* 4.7 4.9 - - - -
113B ILE* 6.0 0.2 - - + -
199B LEU* 3.0 40.1 + - + +
200B GLY* 3.7 8.7 - - - +
201B TYR 3.3 0.2 - - - -
202B VAL* 1.3 77.4 - - + +
204B MET* 1.3 57.3 + - - +
206B PHE* 3.1 16.8 + - + +
207B ASN* 3.0 31.2 + - - -
248B PHE* 4.3 14.1 - - + -
251B TYR* 4.8 5.4 - - + -
273B PHE* 3.9 34.5 - - + -
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Residues in contact with MET 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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200B GLY 3.2 15.1 + - - +
201B TYR* 3.9 3.6 - - - +
203B LEU* 1.3 75.5 - - - +
205B TYR* 1.3 57.2 + - - +
207B ASN* 3.5 19.0 - - + +
208B LEU* 2.8 64.7 + - + +
211B LEU* 4.2 11.4 - - + -
240B LEU* 2.9 37.5 - - + +
241B CYS* 3.4 28.3 - - - -
244B TYR* 4.1 9.9 - - + -
248B PHE* 3.9 22.2 - - + -
252B LEU* 4.2 8.7 - - + -
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Residues in contact with TYR 205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90B GLU* 2.5 29.0 + - + -
93B PHE* 3.7 16.7 - + - -
98B ARG* 2.7 22.3 + - - -
131B PRO* 3.8 18.6 - - + -
178B ARG* 3.3 23.5 + - - -
179B TYR* 3.3 26.2 - + + -
201B TYR 2.8 14.6 + - - +
202B VAL* 2.9 13.5 - - - +
204B MET* 1.3 77.3 - - - +
206B PHE* 1.3 68.7 + + - +
209B GLY* 2.8 32.2 + - - +
210B SER* 3.7 11.3 + - - +
211B LEU* 3.8 16.8 - - + +
214B GLN* 3.6 16.8 - - - -
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Residues in contact with PHE 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89B LEU* 3.9 32.5 - - + -
93B PHE* 3.6 38.2 - + - -
98B ARG 4.9 0.9 - - - +
99B LYS* 4.9 0.7 - - - -
100B PHE* 3.9 40.9 + + + +
105B VAL* 4.2 12.8 - - + -
108B LEU* 4.3 15.7 - - + -
112B MET* 4.3 13.0 - - + -
131B PRO* 4.2 9.0 - - + -
202B VAL* 2.9 40.3 + - + -
203B LEU* 3.1 16.6 + - + +
205B TYR* 1.3 92.1 - + - +
207B ASN* 1.3 65.7 + - - +
209B GLY* 4.1 1.0 + - - -
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Residues in contact with ASN 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100B PHE 5.0 4.8 - - - +
102B LEU* 4.3 9.9 - - - +
105B VAL* 3.6 20.4 - - - +
203B LEU 3.0 13.7 + - - -
204B MET* 3.5 20.0 - - + +
206B PHE* 1.3 79.1 - - - +
208B LEU* 1.3 59.7 + - - +
244B TYR* 3.0 43.2 + - + -
248B PHE* 3.2 47.8 - - - -
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Residues in contact with LEU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98B ARG 4.8 1.1 - - - +
204B MET* 2.8 32.1 + - + +
206B PHE 4.5 0.4 - - - -
207B ASN* 1.3 76.8 - - - +
209B GLY* 1.3 56.9 + - - +
210B SER* 3.3 25.2 + - - +
211B LEU* 4.6 5.2 - - + -
212B PRO* 4.6 4.3 - - + -
240B LEU* 3.8 32.3 - - + +
244B TYR* 3.3 37.3 + - + +
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Residues in contact with GLY 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93B PHE* 3.7 6.6 - - - -
98B ARG* 3.4 54.0 + - - +
205B TYR* 2.8 19.1 + - - -
206B PHE 4.1 0.8 + - - -
207B ASN 3.8 0.6 - - - -
208B LEU* 1.3 72.7 - - - +
210B SER* 1.3 63.1 + - - +
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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
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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