Contacts of the helix formed by residues 151 - 169 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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123A ALA* 5.2 0.4 - - - +
124A PRO* 3.8 23.8 - - - +
150A ALA* 1.3 79.2 - - - +
152A CYS* 1.3 69.4 + - - +
153A THR* 3.4 5.7 + - - -
154A THR* 3.0 26.8 + - - -
155A ASN* 2.9 24.4 + - - -
213A ALA* 3.9 9.4 - - - +
320A TYR* 3.7 6.1 - - - -
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Residues in contact with CYS 152 (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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151A SER* 1.3 74.1 - - - +
153A THR* 1.3 65.8 + - - +
155A ASN* 3.3 5.1 + - - +
156A CYS* 3.1 17.5 + - - +
179A HIS* 3.9 24.9 - - - -
292A SER 5.0 0.7 - - - +
314A TYR* 3.7 19.5 - - + -
316A ASN* 3.6 29.6 - - + +
320A TYR* 3.7 22.1 - - + -
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Residues in contact with THR 153 (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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151A SER* 3.2 3.6 + - - -
152A CYS* 1.3 79.6 - - - +
154A THR* 1.3 58.0 + - - +
156A CYS* 3.1 4.2 + - - +
157A LEU* 3.0 26.1 + - + +
175A MET* 3.8 24.2 - - + -
177A THR* 4.2 12.2 - - + +
179A HIS* 3.8 12.5 + - - -
211A THR* 5.1 1.8 - - - +
213A ALA* 3.5 25.4 - - + -
243A VAL* 4.2 6.7 - - + +
314A TYR* 2.7 29.3 + - - +
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Residues in contact with THR 154 (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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124A PRO* 6.0 0.2 - - - +
132A VAL* 4.1 10.8 - - + -
150A ALA* 4.0 21.3 - - + +
151A SER* 3.0 23.8 + - - -
153A THR* 1.3 77.2 - - - +
155A ASN* 1.3 57.0 + - - +
157A LEU* 4.5 3.4 - - - +
158A ALA* 2.9 31.9 + - + +
213A ALA* 3.1 32.4 + - - +
216A ALA* 3.7 19.0 - - + +
217A VAL* 4.3 11.7 - - + +
220A VAL* 4.8 3.1 - - + -
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Residues in contact with ASN 155 (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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132A VAL* 3.5 29.5 - - - +
133A MET 4.3 2.3 + - - +
149A ASN* 3.0 29.4 + - - +
150A ALA* 4.1 5.3 - - - +
151A SER 2.9 23.4 + - - +
152A CYS* 3.6 10.3 - - - +
154A THR* 1.3 75.9 - - - +
156A CYS* 1.3 56.8 + - - +
159A PRO* 2.9 25.2 - - - +
292A SER* 3.4 22.2 + - - +
320A TYR* 3.6 15.1 - - + -
323A ARG* 4.0 21.1 - - + +
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Residues in contact with CYS 156 (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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152A CYS 3.1 6.0 + - - +
153A THR 3.1 9.0 + - - +
155A ASN* 1.3 77.4 - - - +
157A LEU* 1.3 64.1 + - - +
159A PRO* 3.6 3.8 - - - +
160A LEU* 4.0 4.7 + - - +
243A VAL* 3.8 12.6 - - + -
292A SER 3.3 14.3 + - - +
293A SER* 2.8 37.2 + - - -
312A SER* 3.7 22.4 - - - -
314A TYR* 3.4 40.6 - - + -
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Residues in contact with LEU 157 (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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153A THR 3.0 16.2 + - - +
154A THR* 4.7 0.2 - - - -
156A CYS* 1.3 79.6 - - - +
158A ALA* 1.3 58.8 + - - +
160A LEU* 3.3 6.5 + - + +
161A ALA* 2.8 31.3 + - + +
175A MET* 3.8 29.6 - - + -
213A ALA 4.8 0.4 - - - +
214A ALA* 3.9 16.8 - - + +
217A VAL* 3.6 26.5 - - + -
228A LEU* 4.8 7.2 - - + -
243A VAL* 4.1 20.2 - - + -
245A LEU* 3.9 34.5 - - + -
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Residues in contact with ALA 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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132A VAL* 4.2 6.1 - - + -
135A VAL* 3.9 11.7 - - + -
154A THR* 2.9 19.8 + - + +
157A LEU* 1.3 77.9 - - - +
159A PRO* 1.3 62.3 - - + +
161A ALA* 3.3 0.4 + - - -
162A LYS* 2.9 30.3 + - - +
217A VAL* 4.3 17.9 - - + -
220A VAL* 3.9 27.6 - - + -
221A ILE* 3.6 3.8 - - - +
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Residues in contact with PRO 159 (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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132A VAL* 4.4 5.4 - - + -
135A VAL* 3.8 17.9 - - + -
155A ASN 2.9 31.2 - - - +
156A CYS 3.6 7.4 - - - +
158A ALA* 1.3 91.7 - - + +
160A LEU* 1.3 60.8 + - - +
162A LYS* 3.4 3.1 + - + +
163A VAL* 3.3 27.5 + - - +
270A LEU* 4.0 8.3 - - + +
273A ILE* 4.0 27.6 - - + -
274A LEU* 4.4 16.2 - - + -
292A SER* 4.6 1.3 - - - -
293A SER* 4.7 4.3 - - - -
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Residues in contact with LEU 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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156A CYS 4.0 8.9 + - - +
157A LEU* 3.3 10.9 + - + +
158A ALA 3.3 0.4 - - - -
159A PRO* 1.3 80.7 - - - +
161A ALA* 1.3 64.1 + - - +
163A VAL* 3.1 3.6 + - - +
164A ILE* 3.0 42.4 + - + +
243A VAL* 5.4 2.7 - - + -
245A LEU* 4.6 16.2 - - + -
262A VAL* 4.2 15.5 - - + -
274A LEU* 4.6 12.9 - - + +
293A SER* 4.3 6.3 - - - +
295A PHE* 3.9 25.1 - - + -
310A LEU* 4.2 23.3 - - + -
312A SER* 4.1 22.7 - - - -
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Residues in contact with ALA 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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157A LEU* 2.8 28.7 + - + +
158A ALA 3.8 3.4 - - - +
160A LEU* 1.3 73.1 - - - +
162A LYS* 1.3 58.0 + - - +
164A ILE* 4.5 2.2 - - - +
165A HIS* 2.8 35.3 + - - +
170A ILE* 3.8 14.6 - - + +
217A VAL* 4.2 12.6 - - + -
221A ILE* 4.4 1.6 - - - -
224A LEU* 4.0 20.9 - - + -
228A LEU* 4.7 5.2 - - + -
245A LEU* 4.9 3.8 - - + -
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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
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134A GLY 3.7 24.9 - - - +
135A VAL* 4.3 19.1 + - + +
158A ALA 2.9 18.5 + - - +
159A PRO* 3.5 4.5 - - + +
160A LEU 3.2 0.2 - - - -
161A ALA* 1.3 78.1 - - - +
163A VAL* 1.3 59.5 + - + +
165A HIS* 3.9 2.4 - - - +
166A ASP* 2.9 57.2 + - - +
221A ILE* 3.9 17.5 - - + -
269A PRO* 6.3 2.9 - - - -
270A LEU* 4.5 18.2 - - + -
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Residues in contact with VAL 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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159A PRO 3.4 13.0 - - - +
160A LEU* 3.1 7.0 + - - +
162A LYS* 1.3 78.7 - - + +
164A ILE* 1.3 65.1 + - - +
166A ASP* 3.3 3.4 + - - -
167A ASN* 2.9 42.0 + - - +
261A VAL* 3.8 33.7 - - + +
262A VAL* 4.1 13.5 - - + -
265A ALA* 3.7 14.4 - - + -
270A LEU* 3.6 24.2 - - + -
274A LEU* 3.8 8.5 - - + -
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Residues in contact with ILE 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 LEU* 3.0 23.4 + - + +
161A ALA* 4.0 3.1 - - - +
163A VAL* 1.3 77.9 - - + +
165A HIS* 1.3 58.5 + - - +
167A ASN 3.3 0.3 + - - -
168A PHE* 2.8 44.6 + - + +
169A GLY 3.3 2.6 + - - -
170A ILE* 4.0 12.8 - - + -
245A LEU* 5.4 1.8 - - + -
247A CYS* 4.6 7.0 - - - -
249A LEU* 3.6 31.4 - - + -
258A ILE* 3.9 22.4 - - + -
261A VAL* 5.2 0.4 - - + -
262A VAL* 4.3 14.8 - - + -
310A LEU* 3.7 28.7 - - + -
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Residues in contact with HIS 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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161A ALA 2.8 20.8 + - - +
162A LYS* 4.0 3.6 - - - +
164A ILE* 1.3 78.0 - - - +
166A ASP* 1.3 69.0 + - - +
169A GLY* 3.0 26.8 + - - +
170A ILE* 3.1 40.5 + - + +
221A ILE* 4.8 7.9 - - + -
223A GLU* 2.7 41.2 + - + +
224A LEU* 3.4 29.8 - - + +
227A LYS* 5.7 1.8 - - + -
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Residues in contact with ASP 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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162A LYS* 2.9 56.6 + - - +
163A VAL* 3.7 6.2 + - - +
164A ILE 3.3 0.2 - - - -
165A HIS* 1.3 86.1 - - - +
167A ASN* 1.3 66.8 + - - +
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Residues in contact with ASN 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 VAL* 2.9 39.5 + - - +
166A ASP* 1.3 88.4 - - - +
168A PHE* 1.3 87.1 + - + +
251A LYS* 3.9 21.0 + - - +
261A VAL* 3.7 24.6 + - + +
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Residues in contact with PHE 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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164A ILE* 2.8 30.6 + - + +
167A ASN* 1.3 94.4 - - + +
169A GLY* 1.3 67.5 + - - +
249A LEU* 4.2 14.1 - - + -
250A GLU* 3.3 2.3 + - - +
251A LYS* 2.9 47.8 + - + +
252A PRO 3.9 10.5 - - - -
253A ALA* 3.5 29.6 - - + -
257A ASP* 4.0 30.5 - - + -
258A ILE* 3.9 15.7 - - + -
261A VAL* 3.8 20.0 - - + -
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Residues in contact with GLY 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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164A ILE 3.3 2.8 + - - -
165A HIS* 3.0 26.6 + - - -
168A PHE* 1.3 77.7 - - - +
170A ILE* 1.3 62.8 + - - -
171A VAL 3.8 0.2 - - - -
249A LEU* 3.2 7.5 - - - +
250A GLU* 2.8 38.5 + - - -
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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