Contacts of the helix formed by residues 151 - 168 (chain O) in PDB entry 4WNC
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 151 (chain O).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123O ALA* 5.1 0.4 - - - +
124O PRO* 3.8 24.4 - - - +
150O ALA* 1.3 77.0 - - - +
152O CYS* 1.3 68.8 + - - +
153O THR* 3.5 5.0 + - - -
154O THR* 2.9 27.4 + - - -
155O ASN* 2.9 26.9 + - - -
213O ALA* 3.7 9.9 - - - +
320O TYR* 3.7 6.5 - - - -
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Residues in contact with CYS 152 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151O SER* 1.3 73.9 - - - +
153O THR* 1.3 63.1 + - - +
155O ASN* 3.3 5.6 + - - +
156O CYS 3.0 22.0 + - - -
179O HIS* 3.8 26.2 - - - -
292O SER 5.0 0.7 - - - +
314O TYR* 3.7 12.6 - - + -
316O ASN* 3.6 37.0 - - + +
320O TYR* 3.7 21.2 - - + -
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Residues in contact with THR 153 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151O SER* 3.2 3.9 + - - -
152O CYS* 1.3 78.3 - - - +
154O THR* 1.3 61.0 + - - +
156O CYS* 3.1 3.1 + - - +
157O LEU* 2.9 27.4 + - - +
175O MET* 3.8 24.9 - - + -
177O THR* 4.3 11.0 + - + +
179O HIS* 3.8 13.3 + - - -
211O THR* 5.1 2.5 + - - +
213O ALA* 3.7 22.4 - - + -
243O VAL* 4.1 7.6 - - + -
314O TYR* 2.7 29.2 + - - +
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Residues in contact with THR 154 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124O PRO* 5.8 0.5 - - - +
132O VAL* 4.0 11.0 - - + -
150O ALA* 3.8 22.2 - - + -
151O SER* 2.9 23.4 + - - -
153O THR* 1.3 76.9 - - - +
155O ASN* 1.3 57.2 + - - +
157O LEU* 4.5 3.8 - - - +
158O ALA* 2.9 32.5 + - + +
213O ALA* 3.1 33.1 + - - +
216O ALA* 3.7 16.1 - - + +
217O VAL* 4.3 12.8 - - + +
220O VAL* 4.9 3.6 - - + -
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Residues in contact with ASN 155 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132O VAL* 3.5 29.2 - - - +
133O MET 4.3 1.7 + - - -
149O ASN* 2.9 30.5 + - - +
150O ALA* 4.0 4.9 - - - +
151O SER 2.9 24.6 + - - +
152O CYS* 3.6 7.4 - - - +
154O THR* 1.3 77.5 - - - +
156O CYS* 1.3 57.4 + - - +
159O PRO* 2.9 25.1 - - - +
292O SER* 3.4 21.3 + - - +
320O TYR* 3.6 15.3 - - + -
323O ARG* 3.9 21.7 - - + +
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Residues in contact with CYS 156 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152O CYS 3.0 8.7 + - - +
153O THR 3.5 7.9 - - - +
155O ASN* 1.3 77.4 - - - +
157O LEU* 1.3 65.9 + - - +
159O PRO* 3.5 4.2 - - - +
160O LEU* 4.0 4.7 + - - +
243O VAL* 3.8 14.4 - - + -
292O SER 3.4 14.5 + - - +
293O SER* 2.9 33.5 + - - -
312O SER* 3.8 21.2 - - - -
314O TYR* 3.4 41.7 - - + -
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Residues in contact with LEU 157 (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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153O THR 2.9 16.2 + - - +
154O THR* 4.7 0.2 - - - -
156O CYS* 1.3 79.3 - - - +
158O ALA* 1.3 60.2 + - - +
160O LEU* 3.3 7.2 + - + +
161O ALA* 2.8 31.3 + - + +
175O MET* 3.8 23.6 - - + -
213O ALA 4.8 0.4 - - - +
214O ALA* 3.8 23.6 - - + -
217O VAL* 3.6 27.1 - - + -
228O LEU* 4.7 7.4 - - + -
243O VAL* 4.2 13.2 - - + -
245O LEU* 3.8 40.4 - - + -
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Residues in contact with ALA 158 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132O VAL* 4.2 7.0 - - + -
135O VAL* 3.9 12.1 - - + -
154O THR* 2.9 18.8 + - + +
157O LEU* 1.3 77.9 - - - +
159O PRO* 1.3 62.1 - - + +
161O ALA* 4.3 3.8 - - - -
162O LYS* 2.8 31.7 + - - +
217O VAL* 4.2 13.4 - - + +
220O VAL* 3.9 27.8 - - + -
221O ILE* 3.7 3.9 - - + +
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Residues in contact with PRO 159 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132O VAL* 4.4 5.2 - - + -
135O VAL* 3.8 17.9 - - + -
155O ASN 2.9 29.8 - - - +
156O CYS 3.5 7.4 - - - +
158O ALA* 1.3 94.1 - - + +
160O LEU* 1.3 59.6 + - - +
162O LYS* 3.4 4.5 - - + +
163O VAL* 3.2 26.7 + - - +
270O LEU* 4.1 9.1 - - + +
273O ILE* 4.1 26.9 - - + -
274O LEU* 4.4 16.4 - - + -
292O SER* 4.5 1.8 - - - -
293O SER* 4.6 4.5 - - - -
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Residues in contact with LEU 160 (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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156O CYS 4.0 8.7 + - - +
157O LEU* 3.3 11.1 + - + +
158O ALA 3.3 0.4 - - - -
159O PRO* 1.3 78.1 - - - +
161O ALA* 1.3 64.4 + - - +
163O VAL* 3.1 3.2 + - + -
164O ILE* 3.0 40.1 + - + +
243O VAL* 5.4 2.7 - - + -
245O LEU* 4.7 13.7 - - + -
262O VAL* 4.0 21.5 - - + -
274O LEU* 4.5 11.5 - - + +
293O SER* 4.4 6.1 - - - +
295O PHE* 3.9 25.6 - - + -
310O LEU* 4.2 25.8 - - + +
312O SER* 4.2 22.0 - - - -
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Residues in contact with ALA 161 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157O LEU* 2.8 29.7 + - + +
158O ALA 3.7 2.9 - - - +
160O LEU* 1.3 73.5 - - - +
162O LYS* 1.3 57.9 + - - +
164O ILE* 4.6 2.0 - - - +
165O HIS* 2.8 34.7 + - - +
170O ILE* 4.0 15.2 - - + +
217O VAL* 4.1 22.0 - - + -
221O ILE* 4.2 2.5 - - + -
224O LEU* 4.2 11.0 - - + -
228O LEU* 4.9 2.7 - - + -
245O LEU* 5.0 3.8 - - + -
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Residues in contact with LYS 162 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134O GLY 3.7 24.2 - - - +
135O VAL* 4.2 21.2 + - + +
158O ALA 2.8 17.6 + - - +
159O PRO* 3.4 6.1 - - + +
161O ALA* 1.3 76.9 - - - +
163O VAL* 1.3 59.6 + - + +
165O HIS* 4.1 2.0 - - - +
166O ASP* 2.9 61.9 + - - +
221O ILE* 3.7 16.5 - - + +
269O PRO* 6.5 1.1 - - - -
270O LEU* 4.7 16.6 - - + -
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Residues in contact with VAL 163 (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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159O PRO 3.2 13.6 + - - +
160O LEU* 3.1 7.8 + - - +
162O LYS* 1.3 78.3 - - + +
164O ILE* 1.3 65.5 + - - +
166O ASP* 4.5 2.9 - - - -
167O ASN* 2.7 44.8 + - - +
261O VAL* 3.9 32.8 - - + +
262O VAL* 4.2 12.1 - - + -
265O ALA* 3.7 14.8 - - + -
270O LEU* 3.7 22.4 - - + -
274O LEU* 3.8 8.7 - - + -
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Residues in contact with ILE 164 (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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160O LEU* 3.0 21.3 + - + +
161O ALA* 4.0 3.6 - - - +
163O VAL* 1.3 77.2 - - + +
165O HIS* 1.3 57.0 + - - +
168O PHE* 2.8 43.1 + - + +
169O GLY 3.1 4.2 + - - -
170O ILE* 3.9 16.6 - - + -
245O LEU* 5.5 1.8 - - + -
247O CYS* 4.6 5.6 - - - -
249O LEU* 3.6 30.3 - - + -
258O ILE* 3.7 22.7 - - + -
261O VAL* 5.1 0.2 - - + -
262O VAL* 4.3 15.7 - - + -
310O LEU* 3.7 29.8 - - + -
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Residues in contact with HIS 165 (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 ALA 2.8 20.2 + - - +
162O LYS* 4.1 3.8 - - - +
164O ILE* 1.3 74.4 - - - +
166O ASP* 1.3 73.0 + - - +
168O PHE 3.8 0.2 + - - -
169O GLY* 3.1 27.0 + - - +
170O ILE* 3.1 34.7 + - + +
221O ILE* 4.6 8.3 - - + -
223O GLU* 2.8 41.9 + - + +
224O LEU* 3.5 30.9 - - + +
227O LYS* 5.7 1.8 - - + -
250O GLU* 4.4 9.4 - - - -
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Residues in contact with ASP 166 (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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162O LYS* 2.9 57.6 + - - +
163O VAL* 3.8 5.8 - - - +
164O ILE 3.3 0.2 - - - -
165O HIS* 1.3 85.5 - - - +
167O ASN* 1.3 66.7 + - - +
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Residues in contact with ASN 167 (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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163O VAL* 2.7 40.2 + - - +
165O HIS 3.2 0.2 - - - -
166O ASP* 1.3 88.3 - - - +
168O PHE* 1.3 87.5 + - + +
169O GLY 3.8 0.2 - - - -
251O LYS* 4.3 17.2 + - - +
261O VAL* 3.6 23.8 - - + +
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Residues in contact with PHE 168 (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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164O ILE* 2.8 29.6 + - + +
167O ASN* 1.3 93.6 - - + +
169O GLY* 1.3 66.7 + - - +
249O LEU* 4.3 10.1 - - + -
250O GLU* 3.3 4.0 - - - +
251O LYS* 2.9 53.2 + - + +
252O PRO 4.4 8.3 - - - -
253O ALA* 3.5 29.2 - - + -
257O ASP* 4.0 26.2 - - + -
258O ILE* 3.9 17.9 - - + -
261O VAL* 3.8 25.6 - - + -
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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