Contacts of the helix formed by residues 191 - 209 (chain O) in PDB entry 4HOK
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 O).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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125O ILE* 3.2 18.6 - - - +
156O TYR* 5.1 3.1 - - - -
164O HIS* 4.0 12.8 - - - -
190O GLN* 1.3 77.6 - - - +
192O ARG* 1.3 68.3 + - - +
193O ARG* 3.4 16.8 + - - +
194O ASP* 3.0 22.0 + - - +
195O ASP* 3.7 3.3 + - - +
260O PHE* 2.9 42.3 + - - -
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Residues in contact with ARG 192 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120O HIS* 3.1 44.3 - - + +
125O ILE* 3.1 12.5 - - + +
156O TYR* 3.5 34.5 + - + -
157O ARG* 4.1 16.9 - - - +
164O HIS* 4.2 12.5 + - - +
191O SER* 1.3 75.2 + - - +
193O ARG* 1.3 63.4 + - - +
195O ASP 3.2 11.6 + - - -
196O LEU* 3.4 4.7 + - - +
261O ASP 3.4 24.5 + - - -
262O ASP 3.5 13.3 + - - +
263O LYS* 3.3 38.7 - - - +
264O PRO* 3.7 13.7 - - + -
266O TYR* 3.3 14.3 + - - -
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Residues in contact with ARG 193 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167O TYR* 5.1 3.0 - - - -
183O ASN* 3.5 35.2 + - - +
188O ILE* 3.8 23.4 - - - +
191O SER* 3.4 13.2 + - - +
192O ARG* 1.3 75.3 - - - +
194O ASP* 1.3 76.5 + - - +
196O LEU* 2.8 13.4 + - - +
197O GLU* 2.8 28.2 + - - +
255O CYS* 4.2 10.3 - - - +
256O ARG 5.7 1.1 + - - -
258O LEU* 3.6 40.9 + - + -
259O ARG* 3.3 17.9 - - - +
260O PHE* 2.8 46.1 - - - +
262O ASP 5.2 1.7 + - - +
264O PRO* 4.2 4.1 - - + +
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Residues in contact with ASP 194 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181O SER* 2.7 37.0 + - - +
183O ASN* 3.3 18.9 + - - +
184O THR* 3.9 10.0 + - - +
188O ILE 5.9 0.4 - - - -
189O GLU 4.2 2.6 - - - +
190O GLN* 3.5 19.8 - - - +
191O SER* 3.0 30.7 + - - +
193O ARG* 1.3 85.0 + - - +
195O ASP* 1.3 66.1 + - - +
197O GLU* 3.1 4.3 + - - +
198O SER* 3.0 28.6 + - - +
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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
----------------------------------------------------------
116O ILE* 3.8 19.5 - - + +
120O HIS* 3.4 13.2 + - - +
125O ILE* 3.1 19.1 - - - +
126O HIS* 2.4 37.4 + - - +
127O ARG* 3.0 26.4 + - - -
129O VAL* 4.0 11.0 - - + +
190O GLN* 4.2 5.2 + - - -
191O SER 3.7 1.2 + - - +
192O ARG 3.2 9.4 + - - +
194O ASP* 1.3 76.7 - - - +
196O LEU* 1.3 62.8 + - - +
198O SER* 3.5 6.5 - - - -
199O LEU* 3.2 17.5 + - - +
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Residues in contact with LEU 196 (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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113O ILE* 4.4 22.9 - - + -
116O ILE* 4.5 19.7 - - + -
120O HIS* 4.7 0.2 - - + -
192O ARG 3.4 5.6 + - - +
193O ARG* 2.8 14.0 + - - +
195O ASP* 1.3 78.6 - - - +
197O GLU* 1.3 62.5 + - - +
199O LEU* 2.9 11.2 + - + -
200O GLY 3.1 1.7 + - - -
251O TYR* 2.5 34.9 + - - +
255O CYS* 4.0 11.2 - - + -
258O LEU* 4.9 3.6 - - + -
264O PRO* 3.3 41.3 - - + -
266O TYR* 3.8 17.0 - - + -
269O LEU* 4.3 15.0 - - + -
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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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181O SER* 3.7 10.9 - - - -
182O ILE* 2.6 25.9 + - - +
183O ASN* 4.5 8.7 + - - -
193O ARG* 2.8 15.5 + - - +
194O ASP* 3.1 7.8 + - - +
196O LEU* 1.3 72.7 - - - +
198O SER* 1.3 55.7 + - - +
200O GLY* 2.5 28.6 + - - -
201O TYR* 2.5 41.4 + - + +
252O LEU* 3.9 13.1 - - + +
255O CYS* 4.0 16.9 - - + +
256O ARG* 3.1 37.1 + - + -
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Residues in contact with SER 198 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129O VAL* 3.9 25.8 + - - -
179O TYR* 3.0 28.6 + - - +
180O ALA* 4.4 1.0 - - - -
181O SER 4.1 6.9 + - - -
194O ASP 3.0 13.2 + - - -
195O ASP* 3.5 11.6 - - - -
197O GLU* 1.3 70.3 - - - +
199O LEU* 1.3 65.3 + - - +
200O GLY 2.8 5.8 + - - -
201O TYR* 3.1 4.9 + - - +
202O VAL* 2.9 27.7 + - - +
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Residues in contact with LEU 199 (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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109O ALA 4.3 1.3 - - - +
112O MET* 3.5 44.0 - - + -
113O ILE* 3.5 48.2 - - + +
116O ILE* 3.9 16.8 - - + -
129O VAL* 4.0 5.6 - - + +
195O ASP 3.2 9.1 + - - +
196O LEU* 2.9 13.9 + - + +
198O SER* 1.3 79.0 - - - +
200O GLY* 1.3 55.0 + - - +
202O VAL* 3.4 7.1 + - + +
203O LEU* 2.9 46.7 + - + +
251O TYR* 3.3 10.1 - - + +
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Residues in contact with GLY 200 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196O LEU 3.1 5.3 + - - -
197O GLU 2.5 19.2 + - - -
199O LEU* 1.3 68.8 - - - +
201O TYR* 1.3 64.0 + - - -
203O LEU* 3.1 17.6 + - - +
204O MET* 3.1 15.1 + - - +
251O TYR* 3.8 21.9 + - - -
252O LEU* 4.1 15.2 - - - +
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Residues in contact with TYR 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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179O TYR* 3.4 28.5 - - + -
180O ALA 3.2 22.2 - - - -
181O SER* 4.0 0.9 - - - -
182O ILE* 3.6 6.9 + - - +
197O GLU* 2.5 43.7 + - + -
198O SER* 3.1 2.7 + - - +
200O GLY* 1.3 74.0 - - - +
202O VAL* 1.3 57.4 + - - +
204O MET* 4.4 3.1 - - - -
205O TYR* 2.8 29.9 + - - +
211O LEU* 3.5 14.6 - - + +
213O TRP* 3.9 31.9 - + + -
232O LYS* 4.3 13.0 - - + -
240O LEU* 4.3 8.3 - - + -
252O LEU* 3.8 19.3 - - + -
256O ARG* 2.8 29.9 + - - -
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Residues in contact with VAL 202 (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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112O MET* 4.3 13.9 - - + -
129O VAL* 4.1 6.3 - - + +
130O LYS* 4.0 17.5 - - - -
131O PRO* 3.8 21.1 - - + -
179O TYR* 3.6 20.4 - - + -
198O SER 2.9 28.7 + - - +
199O LEU* 3.5 12.8 - - + +
201O TYR* 1.3 76.8 - - - +
203O LEU* 1.3 63.0 + - - +
205O TYR* 3.0 9.3 + - - +
206O PHE* 3.0 43.0 + - + -
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Residues in contact with LEU 203 (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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105O VAL* 4.2 11.8 - - + +
108O LEU* 5.5 0.4 - - + -
109O ALA* 3.9 29.6 - - + +
112O MET* 4.6 7.0 - - - -
199O LEU* 2.9 36.2 + - + +
200O GLY* 3.1 6.9 + - - +
202O VAL* 1.3 77.2 - - + +
204O MET* 1.3 62.6 + - - +
206O PHE* 3.0 15.4 + - + +
207O ASN* 2.9 25.5 + - - -
248O PHE* 4.3 16.2 - - + -
251O TYR* 4.4 11.9 - - + -
273O PHE* 3.6 38.1 - - + -
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Residues in contact with MET 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 GLY 3.1 10.6 + - - +
201O TYR* 3.8 8.3 - - - +
203O LEU* 1.3 78.3 - - - +
205O TYR* 1.3 57.8 + - - +
207O ASN* 3.0 35.5 + - + +
208O LEU* 2.8 56.2 + - + +
211O LEU* 4.3 12.1 - - + -
240O LEU* 4.7 8.5 - - + +
241O CYS* 3.1 42.4 - - - -
244O TYR* 4.3 9.2 - - + -
248O PHE* 4.0 15.5 - - + -
252O LEU* 4.4 9.4 - - + -
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Residues in contact with TYR 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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90O GLU* 2.6 31.3 + - - -
93O PHE* 3.4 23.4 - + - -
98O ARG* 2.8 28.5 + - - -
131O PRO* 3.6 25.6 - - + -
178O ARG* 3.4 23.1 + - - -
179O TYR* 3.8 5.6 - + + -
201O TYR 2.8 15.0 + - - +
202O VAL* 3.0 13.0 - - - +
204O MET* 1.3 76.9 - - - +
206O PHE* 1.3 63.2 + + - +
209O GLY* 2.7 35.0 + - - -
210O SER* 3.3 18.4 + - - +
211O LEU* 3.7 21.5 - - + +
214O GLN* 3.9 10.8 - - - -
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Residues in contact with PHE 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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89O LEU* 3.7 38.1 - - + -
93O PHE* 3.4 31.7 - + + -
99O LYS* 4.0 0.9 - - - -
100O PHE* 3.4 47.4 + + + -
105O VAL* 4.0 13.2 - - + -
108O LEU* 4.3 10.8 - - + -
112O MET* 4.5 6.7 - - - -
131O PRO* 3.7 18.8 - - + -
202O VAL* 3.0 33.2 + - + -
203O LEU* 3.4 15.3 - - + +
205O TYR* 1.3 95.9 - + - +
207O ASN* 1.3 65.1 + - - +
209O GLY 4.0 0.5 + - - -
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Residues in contact with ASN 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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99O LYS* 3.8 16.6 - - - +
100O PHE 4.8 6.0 - - - +
101O SER 4.9 0.3 - - - +
102O LEU* 4.4 5.9 - - - +
105O VAL* 3.6 20.7 - - - +
203O LEU 2.9 17.3 + - - -
204O MET* 3.0 34.2 + - + +
206O PHE* 1.3 82.0 - - - +
208O LEU* 1.3 62.0 + - - +
209O GLY 3.5 0.2 + - - -
244O TYR* 3.6 35.9 + - + -
248O PHE* 3.4 33.8 - - - -
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Residues in contact with LEU 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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99O LYS* 4.8 10.3 + - - +
204O MET* 2.8 30.4 + - + +
207O ASN* 1.3 72.3 - - - +
209O GLY* 1.3 55.5 + - - +
210O SER* 3.1 28.6 + - - +
211O LEU* 4.8 1.3 - - + -
212O PRO* 4.3 7.9 - - + -
240O LEU* 3.9 37.0 - - + +
242O LYS 5.0 2.0 - - - +
244O TYR* 3.4 34.5 - - + +
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Residues in contact with GLY 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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93O PHE* 3.6 7.8 - - - -
98O ARG* 3.1 48.5 + - - +
99O LYS* 5.1 0.4 - - - -
205O TYR* 2.7 18.1 + - - -
206O PHE 4.5 0.2 - - - -
207O ASN 3.3 3.0 - - - -
208O LEU* 1.3 73.1 - - - +
210O SER* 1.3 65.9 + - - +
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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