Contacts of the helix formed by residues 146 - 164 (chain C) in PDB entry 4KEU
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 THR 146 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C TYR 4.0 9.6 - - - +
100C ILE* 2.7 37.4 + - + +
101C ASP* 5.2 1.8 - - - -
143C PRO* 3.9 22.7 - - + +
144C GLY 3.0 6.6 + - - +
145C ILE* 1.3 76.7 - - - +
147C LYS* 1.3 60.7 + - - +
148C ASP 4.3 0.7 - - - -
149C VAL* 3.1 17.7 + - - +
150C GLU* 2.9 28.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C THR* 1.3 74.6 - - - +
148C ASP* 1.3 63.5 + - - +
150C GLU* 3.2 9.8 + - - +
151C LYS* 2.9 37.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C ILE* 3.8 3.1 - - + -
100C ILE 3.5 14.4 - - - +
101C ASP* 3.2 16.9 + - - +
102C LEU* 2.9 42.3 + - + +
107C LEU* 6.1 1.2 - - - +
146C THR* 3.4 1.8 + - - -
147C LYS* 1.3 82.5 - - - +
149C VAL* 1.3 62.9 + - - +
151C LYS* 3.3 29.7 + - - +
152C VAL* 3.2 26.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C ILE* 3.9 23.8 - - + +
99C TYR* 3.3 29.6 - - - +
139C ALA 3.5 19.9 - - - +
140C ALA* 3.9 16.2 - - + -
144C GLY 4.2 2.7 - - - +
145C ILE* 4.2 11.7 - - - -
146C THR* 3.1 27.8 + - - +
148C ASP* 1.3 76.8 - - - +
150C GLU* 1.3 60.8 + - - +
152C VAL* 3.4 5.4 + - - +
153C ILE* 3.1 31.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 150 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C ILE* 3.9 13.7 - - + +
146C THR 2.9 17.7 + - - +
147C LYS* 3.6 7.9 - - - +
149C VAL* 1.3 75.0 - - - +
151C LYS* 1.3 66.1 + - - +
153C ILE* 3.0 11.1 + - - +
154C ARG* 2.6 67.8 + - + +
184C ILE* 4.0 19.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C LEU* 4.5 10.3 - - + +
106C PHE* 4.4 10.3 + - - +
107C LEU* 6.0 0.4 - - - +
108C ASN 5.6 1.8 - - - +
109C ARG 4.0 22.0 + - - +
110C SER* 5.8 0.2 - - - +
111C ILE* 3.8 34.4 - - + +
114C ILE* 4.5 13.1 - - + +
147C LYS* 2.9 25.4 + - + +
148C ASP* 3.5 29.2 + - - +
150C GLU* 1.3 75.7 - - + +
152C VAL* 1.3 57.4 + - - +
154C ARG 3.4 0.3 + - - -
155C ALA* 2.9 29.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 152 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C ILE* 3.9 33.4 - - + +
98C ILE* 4.2 9.2 - - + -
102C LEU* 3.7 29.8 - - + -
114C ILE* 4.9 3.4 - - + -
118C PHE* 4.2 7.6 - - + -
138C ILE* 3.7 23.1 - - + -
139C ALA 5.3 2.5 - - - +
148C ASP 3.2 15.3 + - - +
149C VAL* 3.6 8.1 - - - +
150C GLU 3.2 0.4 - - - -
151C LYS* 1.3 73.9 - - - +
153C ILE* 1.3 65.7 + - - +
155C ALA* 3.1 8.0 + - - +
156C ALA* 2.9 22.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 153 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C ILE* 3.8 25.8 - - + -
139C ALA 5.3 2.0 - - - +
145C ILE* 4.2 7.4 - - + -
149C VAL* 3.1 28.8 + - + +
150C GLU* 3.0 15.6 + - - +
152C VAL* 1.3 75.5 - - - +
154C ARG* 1.3 57.7 + - - +
156C ALA* 3.1 6.4 + - - +
157C ALA 3.1 22.5 + - - -
181C GLN* 4.2 23.6 - - + +
184C ILE* 3.8 36.3 - - + -
185C LEU* 3.4 29.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ILE* 3.7 31.2 - - + -
150C GLU* 2.6 53.0 + - - +
151C LYS* 3.8 3.8 - - - +
153C ILE* 1.3 72.6 - - - +
155C ALA* 1.3 66.2 + - - +
157C ALA* 3.3 10.0 + - - +
158C ILE* 3.2 25.7 + - + +
183C ARG* 6.0 1.0 - - - +
184C ILE* 4.0 23.8 - - + +
187C GLU* 5.3 6.3 + - - -
188C GLU* 2.3 42.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ILE* 3.5 21.7 - - - +
114C ILE* 3.5 30.3 - - + -
115C ALA* 3.6 12.3 - - - +
118C PHE* 3.8 5.6 - - + -
151C LYS 2.9 15.1 + - - +
152C VAL 3.4 8.5 - - - +
154C ARG* 1.3 73.5 - - - +
156C ALA* 1.3 65.3 + - - +
158C ILE* 3.2 5.1 + - - +
159C ALA* 3.0 20.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 156 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C PHE* 3.9 11.1 - - + -
136C VAL* 3.7 15.6 - - + +
138C ILE* 3.6 30.3 - - + -
152C VAL 2.9 5.4 + - - +
153C ILE* 3.3 10.1 - - - +
155C ALA* 1.3 75.7 - - - +
157C ALA* 1.3 57.6 + - - +
159C ALA* 3.2 3.2 + - - +
160C ASN* 2.9 28.9 + - - +
167C ILE* 3.6 17.7 - - + +
185C LEU* 4.6 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C ILE 3.1 12.2 + - - +
154C ARG* 3.4 11.0 - - - +
155C ALA 3.2 0.2 - - - -
156C ALA* 1.3 76.8 - - - +
158C ILE* 1.3 62.4 + - + +
160C ASN* 3.3 2.4 + - - +
161C LYS* 3.0 31.2 + - + +
185C LEU* 3.9 7.3 - - + +
188C GLU* 3.7 26.9 - - + +
190C VAL* 3.7 27.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 158 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ILE* 3.9 26.0 - - + -
112C ASP* 3.4 26.5 - - - +
115C ALA* 3.8 20.2 - - + -
119C ILE* 4.6 8.3 - - + -
154C ARG* 3.4 8.7 - - + +
155C ALA 3.2 6.6 + - - +
157C ALA* 1.3 78.0 - - + +
159C ALA* 1.3 63.6 + - - +
161C LYS* 3.4 14.3 + - - +
162C GLU* 3.0 27.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 159 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C ALA* 4.5 1.5 - - - +
118C PHE* 3.8 28.3 - - + -
119C ILE* 4.0 19.5 - - + -
122C ILE* 4.5 3.8 - - + -
136C VAL* 4.0 13.0 - - + -
155C ALA 3.0 12.9 + - - +
156C ALA 3.2 6.9 + - - +
158C ILE* 1.3 77.2 - - - +
160C ASN* 1.3 53.9 + - - +
162C GLU* 3.2 0.7 + - - -
163C THR* 2.7 41.0 + - - +
165C VAL* 5.2 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 160 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C VAL* 5.1 0.8 - - + +
156C ALA 2.9 15.9 + - - +
157C ALA 3.7 3.8 - - - +
158C ILE 3.3 0.2 - - - -
159C ALA* 1.3 76.2 - - - +
161C LYS* 1.3 65.7 + - - +
163C THR* 4.3 0.9 - - - -
164C LYS* 2.6 41.5 + - - +
165C VAL* 2.7 36.3 + - + +
166C PRO* 4.4 1.0 - - - +
167C ILE* 4.0 13.4 - - + +
190C VAL* 3.7 30.2 - - + +
191C ASP* 4.7 2.1 + - - +
194C LYS* 4.3 18.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 161 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C ALA* 3.0 23.8 + - + +
158C ILE* 3.8 14.0 - - - +
160C ASN* 1.3 86.2 - - - +
162C GLU* 1.3 57.3 + - + +
164C LYS* 2.8 27.4 + - - +
188C GLU* 2.9 36.5 + - - +
189C GLY* 4.3 16.6 - - - +
190C VAL* 4.7 1.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 162 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ILE* 4.0 25.8 - - + +
123C LYS* 5.0 11.3 + - - +
158C ILE* 3.0 23.6 + - + +
159C ALA 3.8 3.6 - - - +
160C ASN 3.1 0.4 - - - -
161C LYS* 1.3 80.8 - - + +
163C THR* 1.3 64.4 + - + +
164C LYS* 4.5 6.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 163 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ILE* 4.4 7.6 - - + -
122C ILE* 3.5 36.2 - - + +
123C LYS* 4.1 24.0 - - + -
159C ALA 2.7 22.9 + - - +
162C GLU* 1.3 83.9 - - + +
164C LYS* 1.3 74.0 + - - +
165C VAL* 3.2 25.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 164 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2C ARG* 6.1 4.7 - - - +
160C ASN* 2.6 29.1 + - - +
161C LYS* 2.8 24.8 + - - +
162C GLU 4.5 5.1 + - - +
163C THR* 1.3 78.5 + - - +
165C VAL* 1.3 64.3 + - - +
166C PRO* 4.0 0.2 - - - +
194C LYS* 3.5 25.3 + - - -
----------------------------------------------------------
Back to top of page
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