Contacts of the helix formed by residues 157 - 178 (chain A) in PDB entry 4TZJ
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 ASP 157 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A PHE* 3.5 13.9 - - - -
156A VAL* 1.3 99.6 - - - +
158A THR* 1.3 64.4 + - - +
159A ASP* 3.0 12.5 + - - +
160A ASN* 2.6 35.1 + - - +
161A THR* 3.0 24.4 + - - -
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Residues in contact with THR 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A TRP* 4.9 2.5 - - - +
27A VAL* 4.1 23.6 - - + -
28A ASP* 3.5 6.2 + - - -
29A LEU* 2.9 47.8 + - + +
30A GLU 4.6 0.2 + - - -
155A PHE* 3.7 4.4 - - - -
157A ASP* 1.3 74.5 - - - +
159A ASP* 1.3 65.8 + - - +
161A THR* 3.0 9.6 + - - +
162A LYS* 2.8 37.1 + - + +
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Residues in contact with ASP 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A ASP* 3.0 7.7 + - - +
158A THR* 1.3 78.8 - - - +
160A ASN* 1.3 64.0 + - - +
162A LYS* 3.3 40.8 + - + +
163A GLN* 3.2 22.4 - - - +
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Residues in contact with ASN 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A LYS 5.1 2.6 + - - -
156A VAL* 3.5 32.4 - - + +
157A ASP* 2.6 35.2 + - - +
159A ASP* 1.3 71.0 - - - +
161A THR* 1.3 63.2 + - - +
163A GLN* 3.1 19.6 + - - +
164A MET* 2.9 42.1 + - - +
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Residues in contact with THR 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A TRP* 4.9 1.1 - - + -
29A LEU* 3.9 18.6 - - + -
38A PHE* 3.9 22.7 - - + -
155A PHE* 3.4 8.3 - - - -
156A VAL 5.2 0.2 + - - -
157A ASP 3.0 12.8 + - - -
158A THR 3.0 10.6 + - - -
160A ASN* 1.3 76.4 + - - +
162A LYS* 1.3 59.4 + - - +
164A MET* 4.1 7.6 - - - -
165A PHE* 2.8 30.0 + - - +
228A VAL* 4.8 3.1 - - + -
229A CYS* 2.7 37.6 + - - +
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Residues in contact with LYS 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A GLN* 6.0 1.8 - - - +
21A TRP* 3.8 65.5 - - + +
27A VAL* 4.5 7.4 - - - +
69A LYS* 5.2 2.3 + - - -
158A THR* 2.8 25.0 + - + +
159A ASP* 3.3 37.5 + - - +
161A THR* 1.3 78.1 - - - +
163A GLN* 1.3 58.9 + - + +
165A PHE* 3.5 3.5 - - - +
166A ALA* 3.1 24.6 + - - +
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Residues in contact with GLN 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A LYS* 5.7 4.5 - - - +
159A ASP 3.2 17.9 - - - +
160A ASN* 3.1 20.3 + - - +
162A LYS* 1.3 78.9 - - + +
164A MET* 1.3 55.6 + - - +
165A PHE 3.2 0.2 - - - -
166A ALA* 3.2 7.7 + - - +
167A SER* 2.7 36.6 + - - -
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Residues in contact with MET 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160A ASN* 2.9 34.5 + - - +
161A THR* 3.3 11.6 + - - +
163A GLN* 1.3 76.2 - - + +
165A PHE* 1.3 54.8 + - - +
167A SER* 3.6 11.0 - - - +
168A THR* 2.5 42.8 + - - +
226A GLY* 5.9 0.9 - - - -
227A ILE 3.3 24.9 - - - +
228A VAL* 3.9 13.2 - - + -
229A CYS 5.5 0.9 - - - +
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Residues in contact with PHE 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A TRP* 3.7 24.7 - + + -
25A PHE* 3.7 31.6 - + - -
38A PHE* 4.9 5.2 - + + -
42A TYR* 3.6 35.4 - + - -
45A CYS* 5.6 4.5 - - + -
67A ILE* 4.9 6.7 - - + -
70A LEU* 4.7 5.4 - - + -
72A VAL* 4.2 25.1 - - + -
161A THR 2.8 17.2 + - - +
162A LYS 3.5 4.7 - - - +
164A MET* 1.3 76.3 - - - +
166A ALA* 1.3 60.1 + - + +
168A THR* 3.0 1.8 + - - -
169A ILE* 2.7 65.0 + - + +
228A VAL* 3.8 11.3 - - + +
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Residues in contact with ALA 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A LYS* 3.7 38.4 - - + +
70A LEU* 3.4 15.8 - - + +
162A LYS 3.1 12.2 + - - +
163A GLN* 3.2 10.1 + - - +
165A PHE* 1.3 79.6 - - + +
167A SER* 1.3 63.0 + - - +
170A LYS* 3.1 34.6 + - - +
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Residues in contact with SER 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A GLN 2.7 20.8 + - - -
164A MET* 3.6 14.8 - - - +
166A ALA* 1.3 73.9 - - - +
168A THR* 1.3 63.3 + - - +
170A LYS* 3.4 10.2 + - - +
171A LYS* 3.3 21.0 + - - +
174A ARG* 4.7 2.8 + - - -
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Residues in contact with THR 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42A TYR* 3.5 22.4 - - - +
164A MET* 2.5 31.0 + - - +
165A PHE* 3.5 2.7 - - - -
167A SER* 1.3 72.4 - - - +
169A ILE* 1.3 66.0 + - - +
171A LYS* 3.1 11.6 + - - +
172A LEU 3.1 9.4 + - - -
225A ILE* 3.5 37.2 - - + +
226A GLY* 3.8 18.7 - - - +
227A ILE 4.1 6.2 + - - -
228A VAL* 3.6 13.5 - - + +
237A MET* 4.6 2.5 - - + -
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Residues in contact with ILE 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42A TYR* 4.0 25.6 - - + +
45A CYS* 6.5 0.4 - - + -
46A ALA* 4.9 9.0 - - + +
70A LEU* 3.7 21.8 - - + -
71A LEU 4.9 3.8 - - - +
72A VAL* 5.2 3.8 - - + -
165A PHE* 2.7 52.2 + - + +
168A THR* 1.3 73.6 - - - +
170A LYS* 1.3 61.0 - - - +
172A LEU* 3.2 22.6 + - + +
173A HIS* 2.9 51.1 + - + +
237A MET* 4.6 3.6 - - + -
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Residues in contact with LYS 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A LYS* 3.2 44.5 - - - +
70A LEU* 3.9 20.0 - - + -
166A ALA* 3.1 28.1 + - - +
167A SER* 3.4 9.3 - - - +
168A THR 3.1 0.2 - - - -
169A ILE* 1.3 78.2 - - - +
171A LYS* 1.3 61.8 + - - +
173A HIS* 3.0 17.1 + - - +
174A ARG* 3.0 34.2 + - - +
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Residues in contact with LYS 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167A SER 3.3 6.7 + - - +
168A THR 3.1 10.1 + - - +
170A LYS* 1.3 78.4 - - - +
172A LEU* 1.3 57.5 + - - +
174A ARG* 3.7 28.7 - - + +
175A CYS* 3.0 29.1 + - + +
223A ALA* 6.2 1.8 - - - -
224A SER* 2.7 29.5 + - - +
225A ILE* 4.0 25.4 + - + +
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Residues in contact with LEU 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46A ALA* 4.5 12.3 - - + +
49A PHE* 4.1 20.6 - - + -
50A ILE* 4.5 7.9 - - + -
121A PHE* 4.1 26.2 - - + -
168A THR 3.1 11.2 + - - +
169A ILE* 3.2 24.9 - - + +
171A LYS* 1.3 77.9 - - - +
173A HIS* 1.3 62.5 + - + +
175A CYS* 3.5 3.6 + - + +
176A ILE* 3.2 29.2 + - + +
225A ILE* 3.9 15.0 - - + +
237A MET* 3.8 35.4 - - + -
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Residues in contact with HIS 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A PHE* 3.3 48.6 - + + -
53A ARG* 5.9 1.5 + - - -
70A LEU* 3.9 18.2 - - + +
71A LEU* 3.5 27.9 + - + -
169A ILE* 2.9 35.8 - - + +
170A LYS* 3.0 9.5 + - - +
172A LEU* 1.3 75.5 - - + +
174A ARG* 1.3 66.0 + - - +
176A ILE* 3.4 2.5 + - - +
177A LYS* 3.0 32.2 + - + +
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Residues in contact with ARG 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167A SER 4.7 2.6 + - - -
170A LYS* 3.0 25.4 + - - +
171A LYS* 3.7 44.3 - - + +
173A HIS* 1.3 75.9 - - + +
175A CYS* 1.3 63.3 + - - +
177A LYS* 3.3 38.1 + - - +
178A LYS* 3.4 14.6 + - - +
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Residues in contact with CYS 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A PHE* 5.4 2.0 - - - -
171A LYS* 3.0 20.2 + - + +
172A LEU* 3.7 5.4 - - + +
173A HIS 3.2 0.2 - - - -
174A ARG* 1.3 77.0 - - - +
176A ILE* 1.3 62.7 + - + +
178A LYS* 3.1 16.9 + - - +
179A MET* 3.6 32.2 + - - +
223A ALA* 4.8 10.5 - - - -
225A ILE* 4.3 21.1 - - + -
239A ALA* 5.2 4.7 - - - -
244A LEU* 3.9 16.5 - - - +
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Residues in contact with ILE 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A PHE* 3.9 28.0 - - + -
50A ILE* 4.5 10.8 - - + -
53A ARG* 3.8 29.6 - - + +
54A ARG* 4.1 18.9 + - + +
121A PHE* 4.1 30.3 - - + -
172A LEU* 3.2 22.2 + - + +
173A HIS* 4.1 3.6 - - - +
175A CYS* 1.3 76.8 - - + +
177A LYS* 1.3 67.0 + - - +
179A MET* 3.0 29.1 + - + +
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Residues in contact with LYS 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173A HIS* 3.0 19.1 + - + +
174A ARG* 3.3 29.7 - - - +
176A ILE* 1.3 78.3 - - - +
178A LYS* 1.3 58.0 + - + +
179A MET 3.2 5.9 + - - +
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Residues in contact with LYS 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174A ARG 3.4 9.6 + - - +
175A CYS* 3.1 14.0 + - - +
177A LYS* 1.3 80.3 - - + +
179A MET* 1.3 59.7 + - - +
180A GLU* 4.0 1.7 + - - +
243A TYR 3.8 3.5 - - - +
244A LEU* 3.5 19.9 - - + +
245A LYS* 4.5 7.8 + - - +
246A GLN 5.0 13.4 + - - +
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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