Contacts of the helix formed by residues 152 - 170 (chain C) in PDB entry 4XCS
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 152 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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59C PHE* 3.9 1.1 - - - -
150C GLY 3.7 2.0 + - - -
151C ARG* 1.3 74.0 - - - +
153C VAL* 1.3 63.8 + - - +
154C ASP* 3.3 9.9 + - - +
155C GLU* 3.1 42.6 + - - +
156C THR* 2.9 25.1 + - - -
158C ARG* 5.0 1.0 + - - -
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Residues in contact with VAL 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58C ALA* 3.8 28.3 - - + +
59C PHE* 3.6 34.1 - - + -
62C ARG* 3.5 41.1 - - + +
66C PHE* 4.0 23.1 - - + -
151C ARG 3.5 2.5 + - - +
152C SER* 1.3 73.8 + - - +
154C ASP* 1.3 65.0 + - - +
156C THR* 3.0 2.3 + - - -
157C LEU* 2.8 25.9 + - + +
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Residues in contact with ASP 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ARG* 3.0 32.5 + - - +
152C SER* 3.3 7.7 + - - +
153C VAL* 1.3 77.6 - - - +
155C GLU* 1.3 64.2 + - - +
157C LEU* 3.3 9.1 + - - +
158C ARG* 3.1 44.7 + - - +
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C ARG* 4.5 14.9 + - - +
152C SER* 3.1 27.2 + - - +
154C ASP* 1.3 80.3 - - - +
156C THR* 1.3 59.4 + - - +
158C ARG* 3.4 17.8 + - - +
159C LEU* 2.9 27.5 + - - +
155D GLU* 3.5 46.1 - - - +
158D ARG* 4.8 4.9 + - - -
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Residues in contact with THR 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40C VAL* 4.2 20.9 - - + -
59C PHE* 3.6 19.5 - - + -
66C PHE* 4.1 11.4 - - + -
130C LEU* 4.8 5.2 - - + -
132C ILE* 4.8 9.0 - - + -
151C ARG* 2.9 34.3 + - - +
152C SER 2.9 14.4 + - - -
153C VAL 3.0 4.7 + - - -
155C GLU* 1.3 74.2 - - - +
157C LEU* 1.3 67.1 + - - +
159C LEU* 3.3 7.5 + - + +
160C VAL* 3.1 22.5 + - - +
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Residues in contact with LEU 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ARG* 3.6 14.4 - - - +
65C GLU* 3.5 42.4 - - + +
66C PHE* 3.5 39.5 - - + -
69C LEU* 4.1 13.9 - - + +
153C VAL* 2.8 22.4 + - + +
154C ASP* 3.6 8.7 - - - +
156C THR* 1.3 78.3 - - - +
158C ARG* 1.3 62.3 + - + +
160C VAL* 3.3 3.4 + - - +
161C GLN* 3.0 31.5 + - - +
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Residues in contact with ARG 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152C SER* 5.0 1.0 + - - -
154C ASP* 3.1 34.9 + - - +
155C GLU* 3.5 31.4 + - + +
156C THR 3.3 0.2 - - - -
157C LEU* 1.3 72.6 - - + +
159C LEU* 1.3 62.3 + - - +
161C GLN* 3.3 16.8 + - - +
162C ALA* 2.8 30.1 + - - +
155D GLU* 3.2 28.1 + - - +
158D ARG* 4.9 5.7 - - - +
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Residues in contact with LEU 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130C LEU* 4.5 8.7 - - + -
132C ILE* 4.0 21.1 - - + -
141C GLN* 3.5 40.2 - - - +
151C ARG* 5.0 7.4 - - - +
155C GLU 2.9 14.8 + - - +
156C THR* 3.3 11.4 - - - +
158C ARG* 1.3 76.7 - - - +
160C VAL* 1.3 62.6 + - + +
162C ALA* 3.1 6.8 + - + +
163C PHE* 3.0 46.7 + - + -
145D ASN* 5.1 0.4 - - - +
147D LEU* 3.9 16.4 - - + -
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Residues in contact with VAL 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38C TYR* 4.2 12.3 - - + -
40C VAL* 3.6 30.3 - - + -
66C PHE* 4.6 5.2 - - + -
69C LEU* 4.2 14.6 - - + -
71C CYS* 4.2 13.7 - - + -
132C ILE* 4.4 14.4 - - + -
156C THR 3.1 13.0 + - - +
157C LEU 3.7 6.7 - - - +
159C LEU* 1.3 77.0 - - - +
161C GLN* 1.3 65.5 + - - +
163C PHE* 3.2 10.3 + - - +
164C GLN* 2.9 44.3 + - - +
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Residues in contact with GLN 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69C LEU* 3.9 32.3 - - + +
157C LEU* 3.0 16.0 + - - +
158C ARG* 3.6 25.4 + - - +
160C VAL* 1.3 77.7 - - - +
162C ALA* 1.3 53.3 + - - +
164C GLN* 3.6 9.4 - - - +
165C PHE* 2.7 36.7 + - - +
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Residues in contact with ALA 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158C ARG 2.8 20.6 + - - +
159C LEU* 3.5 6.7 - - - +
161C GLN* 1.3 69.9 - - - +
163C PHE* 1.3 60.3 + - - +
165C PHE* 3.8 5.2 - - - +
166C THR* 2.8 36.1 + - - +
147D LEU* 3.7 22.7 - - + -
149D VAL* 4.6 11.7 - - + -
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Residues in contact with PHE 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C TYR* 3.2 22.4 - + + +
132C ILE* 4.0 19.5 - - + -
140C ARG* 3.4 64.4 - - + -
141C GLN* 3.7 14.6 - - + -
159C LEU* 3.0 49.8 + - + -
160C VAL* 3.6 6.1 - - - +
162C ALA* 1.3 76.7 - - - +
164C GLN* 1.3 56.3 + - - +
166C THR* 3.1 6.0 + - - -
167C ASP* 2.8 34.0 + - - +
145D ASN* 4.1 0.7 - - + -
146D ASP* 3.9 2.5 - - - -
147D LEU* 3.6 32.5 - - + +
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Residues in contact with GLN 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C TYR* 3.6 37.7 - - + +
69C LEU* 2.8 42.2 + - - +
70C ASN* 4.6 3.6 + - - +
160C VAL* 2.9 26.3 + - + +
161C GLN* 3.7 9.3 - - - +
163C PHE* 1.3 73.9 - - - +
165C PHE* 1.3 66.5 + - - +
167C ASP* 3.3 16.8 + - - +
168C LYS* 3.3 17.7 + - - +
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Residues in contact with PHE 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C GLN 2.7 21.6 + - - +
162C ALA* 3.8 6.5 - - - +
164C GLN* 1.3 72.1 - - - +
166C THR* 1.3 54.4 + - + +
168C LYS 3.2 1.0 + - - -
169C HIS* 2.7 88.5 + + + +
170C GLY 4.9 1.1 - - - -
172C VAL* 3.8 31.2 - - + -
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Residues in contact with THR 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140C ARG* 5.2 1.4 + - - -
162C ALA 2.8 29.4 + - - +
163C PHE* 3.1 8.7 + - - -
165C PHE* 1.3 71.8 - - + +
167C ASP* 1.3 67.7 + - - +
170C GLY* 3.0 41.4 + - - +
172C VAL* 4.1 11.0 - - + -
147D LEU* 3.5 11.6 - - - +
148D PRO* 3.6 23.5 - - + +
149D VAL* 3.6 27.1 - - + -
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Residues in contact with ASP 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38C TYR* 2.6 32.3 + - - -
134C ASP* 4.5 1.9 - - - +
135C ASP* 4.2 5.9 - - - +
140C ARG* 2.8 29.3 + - - -
163C PHE 2.8 22.7 + - - +
164C GLN* 3.6 7.3 - - - +
165C PHE 3.2 0.4 - - - -
166C THR* 1.3 78.7 + - - +
168C LYS* 1.3 67.8 + - + +
170C GLY 4.9 0.3 + - - -
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Residues in contact with LYS 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164C GLN 3.3 11.6 + - - +
165C PHE 3.2 1.8 + - - -
167C ASP* 1.3 86.0 - - + +
169C HIS* 1.3 81.1 + - + +
170C GLY 3.7 0.4 - - - -
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Residues in contact with HIS 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C PHE* 2.7 78.1 + + + +
168C LYS* 1.3 90.8 + - + +
170C GLY* 1.3 63.9 + - - +
171C GLU 4.5 2.3 - - - +
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Residues in contact with GLY 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165C PHE* 4.9 0.3 - - - -
166C THR* 3.0 35.7 + - - +
167C ASP 4.8 0.4 + - - -
168C LYS 3.7 1.0 - - - -
169C HIS* 1.3 79.7 - - - +
171C GLU* 1.3 67.5 + - - +
172C VAL* 4.3 2.9 - - - +
148D PRO* 4.6 1.8 - - - -
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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
------------------------------------------------------------
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