Contacts of the helix formed by residues 216 - 236 (chain A) in PDB entry 4WGK
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 216 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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114A GLN* 3.5 13.9 + - - -
118A ILE* 3.8 22.2 - - - -
200A ALA 4.4 1.1 - - - -
201A GLY* 3.1 16.7 + - - +
215A PHE* 1.3 73.4 - - - +
217A ASN* 1.3 58.1 + - - +
218A GLN* 3.9 2.8 + - - +
219A THR* 3.3 24.6 + - - -
220A PHE* 2.9 28.8 + - - +
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Residues in contact with ASN 217 (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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215A PHE* 3.8 26.9 + - + -
216A SER* 1.3 71.6 + - - +
218A GLN* 1.3 57.4 + - + +
220A PHE* 3.6 2.1 - - - +
221A GLN* 2.8 68.3 + - - +
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Residues in contact with GLN 218 (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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114A GLN* 3.4 22.3 - - - +
216A SER* 3.3 2.2 - - - +
217A ASN* 1.3 82.0 - - + +
219A THR* 1.3 62.7 + - - +
221A GLN* 3.3 4.0 + - - +
222A HIS* 3.2 22.9 + - - +
682A LYS* 3.4 32.0 + - - +
685A VAL* 3.8 27.0 - - + +
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Residues in contact with THR 219 (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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113A GLY* 3.9 14.5 - - - -
114A GLN* 3.4 27.3 + - - +
118A ILE* 3.5 4.9 - - - +
199A PRO* 3.9 11.6 - - + +
200A ALA 3.9 15.3 - - - +
201A GLY 4.9 0.9 - - - +
202A TYR* 4.9 1.3 - - + -
216A SER* 3.3 23.1 + - - -
218A GLN* 1.3 78.0 - - - +
220A PHE* 1.3 62.7 + - - +
222A HIS* 3.5 1.9 + - - +
223A MET* 3.1 49.8 + - + +
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Residues in contact with PHE 220 (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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166A ARG* 3.8 35.9 - - + -
167A LEU* 3.8 24.0 - - + -
170A GLU* 3.8 39.9 - - + -
201A GLY 4.4 3.1 + - - +
202A TYR* 3.9 21.8 - - + -
215A PHE* 3.7 23.8 - + + -
216A SER 2.9 19.0 + - - +
217A ASN* 3.6 3.4 - - - +
219A THR* 1.3 77.4 - - - +
221A GLN* 1.3 83.6 + - - +
223A MET* 3.3 11.1 + - - +
224A VAL* 3.1 33.0 + - + +
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Residues in contact with GLN 221 (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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170A GLU* 5.6 0.6 - - - -
174A ARG* 2.7 37.4 + - - +
217A ASN* 2.8 49.1 + - - +
218A GLN* 3.9 4.3 - - - +
220A PHE* 1.3 91.2 - - - +
222A HIS* 1.3 57.7 + - - +
224A VAL* 3.1 4.1 + - - +
225A THR* 2.9 37.6 + - + +
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Residues in contact with HIS 222 (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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110A ASP* 3.6 35.6 + - - +
111A CYS* 3.9 2.1 - - - -
112A THR 2.4 43.1 + - - +
113A GLY* 4.9 0.7 - - - -
136A ARG* 5.1 1.8 - - - -
218A GLN 3.2 13.9 + - - +
219A THR 4.1 3.1 - - - +
221A GLN* 1.3 75.8 - - - +
223A MET* 1.3 61.9 + - - +
225A THR* 3.3 12.0 + - - -
226A GLY* 2.9 24.9 + - - -
685A VAL* 4.7 17.3 - - + -
688A GLN* 4.7 24.3 - - + +
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Residues in contact with MET 223 (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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111A CYS* 3.7 28.3 + - + +
113A GLY 5.2 1.1 - - - +
137A LEU* 6.0 2.5 - - + -
158A ILE* 6.1 1.3 - - + -
160A ILE* 3.7 30.7 - - + -
167A LEU* 4.2 12.1 - - + -
199A PRO* 3.7 17.7 - - + +
202A TYR* 3.6 36.6 - - + -
219A THR* 3.1 39.1 + - + +
220A PHE* 3.4 9.0 - - - +
221A GLN 3.2 0.2 - - - -
222A HIS* 1.3 77.9 - - - +
224A VAL* 1.3 56.7 + - - +
226A GLY* 3.3 1.0 + - - -
227A ILE* 2.9 39.2 + - + +
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Residues in contact with VAL 224 (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 LEU* 3.7 19.1 - - + -
170A GLU* 4.1 9.2 - - + -
171A VAL* 4.2 19.5 - - + -
174A ARG* 3.3 40.6 - - - +
220A PHE* 3.1 34.0 + - + +
221A GLN* 3.1 8.0 + - - +
223A MET* 1.3 76.8 - - - +
225A THR* 1.3 56.1 + - - +
227A ILE* 3.2 3.2 + - - +
228A LEU* 2.8 39.8 + - + +
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Residues in contact with THR 225 (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* 4.2 15.5 - - - +
221A GLN* 2.9 23.9 + - + +
222A HIS* 3.3 22.7 + - - -
224A VAL* 1.3 75.3 - - - +
226A GLY* 1.3 55.4 + - - +
228A LEU* 3.7 10.1 - - + +
229A LYS* 2.8 35.7 + - - +
688A GLN* 4.7 18.4 + - - +
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Residues in contact with GLY 226 (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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109A ALA* 3.3 11.0 - - - +
110A ASP 3.4 25.6 - - - -
111A CYS* 4.0 3.1 - - - -
139A SER* 3.8 6.8 - - - -
222A HIS 2.9 15.7 + - - -
223A MET 3.6 1.3 - - - -
224A VAL 3.2 0.2 - - - -
225A THR* 1.3 75.5 + - - +
227A ILE* 1.3 64.3 + - - +
229A LYS* 3.3 4.8 + - - -
230A SER* 3.1 19.9 + - - -
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Residues in contact with ILE 227 (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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111A CYS* 5.1 0.7 - - + -
139A SER* 3.3 23.5 - - - +
156A VAL* 4.4 3.6 - - + -
158A ILE* 3.7 30.5 - - + -
167A LEU* 3.8 25.4 - - + -
171A VAL* 4.1 28.0 - - + -
190A LEU* 4.3 14.4 - - + -
223A MET* 2.9 24.3 + - + +
224A VAL 3.6 4.5 - - - +
226A GLY* 1.3 74.6 - - - +
228A LEU* 1.3 61.7 + - - +
230A SER* 2.6 19.8 + - - -
231A ILE* 3.2 24.5 + - + +
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Residues in contact with LEU 228 (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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171A VAL* 4.0 19.3 - - + +
174A ARG* 3.6 40.8 - - + +
175A LEU* 3.7 35.0 - - + +
179A TYR* 6.0 0.4 - - + -
224A VAL* 2.8 28.4 + - + +
225A THR* 3.8 8.7 - - + +
227A ILE* 1.3 76.3 - - - +
229A LYS* 1.3 57.8 + - - +
231A ILE* 3.2 4.9 + - + +
232A ASP* 2.8 43.9 + - - +
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Residues in contact with LYS 229 (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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108A ARG 5.4 0.4 - - - -
109A ALA* 3.6 22.1 - - + +
110A ASP* 5.2 8.8 - - - +
225A THR 2.8 22.4 + - - +
226A GLY* 3.7 2.0 - - - +
227A ILE 3.3 0.2 - - - -
228A LEU* 1.3 73.4 - - - +
230A SER* 1.3 56.4 + - - +
232A ASP* 3.3 9.6 + - + +
233A ILE* 3.0 51.5 + - + +
691A GLN* 4.9 11.9 - - - +
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Residues in contact with SER 230 (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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107A GLY* 3.6 23.4 - - - -
108A ARG 4.5 0.7 - - - +
109A ALA* 3.5 9.1 - - - +
139A SER* 2.9 42.0 + - - -
141A ALA* 3.7 14.7 - - - +
156A VAL* 4.4 0.2 - - - +
226A GLY 3.1 9.3 + - - -
227A ILE 2.6 21.7 + - - -
229A LYS* 1.3 75.9 - - - +
231A ILE* 1.3 61.5 + - - +
233A ILE* 3.5 1.5 + - - -
234A ALA 3.2 17.0 + - - -
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Residues in contact with ILE 231 (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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141A ALA* 3.8 19.5 - - + -
143A ILE* 3.7 14.8 - - + +
154A VAL* 4.4 9.6 - - + -
156A VAL* 4.1 13.9 - - + -
171A VAL* 4.8 2.0 - - + -
175A LEU* 4.0 41.1 - - + -
179A TYR* 4.7 1.6 - - + -
183A TYR* 4.6 14.1 - - + -
188A VAL* 5.2 0.7 - - + -
190A LEU* 5.0 2.2 - - + -
227A ILE* 3.2 30.4 + - + +
228A LEU* 3.2 8.3 + - - +
230A SER* 1.3 80.5 + - - +
232A ASP* 1.3 62.5 + - - +
234A ALA* 3.3 3.6 + - - +
235A HIS* 2.9 27.4 + - - +
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Residues in contact with ASP 232 (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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175A LEU* 5.4 0.5 - - - +
178A LYS* 3.5 23.2 + - - +
179A TYR* 2.2 45.3 + - - +
228A LEU* 2.8 33.7 + - - +
229A LYS* 3.3 9.0 + - + +
231A ILE* 1.3 74.9 - - - +
233A ILE* 1.3 59.1 + - + +
235A HIS* 3.5 0.8 - - - +
236A THR* 3.0 37.7 + - + +
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Residues in contact with ILE 233 (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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106A VAL 3.8 13.0 - - - +
107A GLY* 3.8 5.4 - - - -
108A ARG 3.6 26.7 - - - +
229A LYS* 3.0 45.0 + - + +
230A SER 3.8 4.5 - - - +
231A ILE 3.3 0.4 - - - -
232A ASP* 1.3 77.7 - - + +
234A ALA* 1.3 63.4 + - - +
236A THR* 3.3 5.1 + - - -
237A ASN* 2.8 41.9 + - + +
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Residues in contact with ALA 234 (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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105A GLY* 3.4 14.6 - - - +
106A VAL* 3.4 35.9 - - - +
107A GLY 3.8 1.1 - - - +
141A ALA* 4.0 6.5 - - + +
143A ILE* 3.8 17.3 - - + -
230A SER 3.2 10.3 + - - +
231A ILE 3.7 7.4 - - - +
233A ILE* 1.3 79.0 - - - +
235A HIS* 1.3 62.3 + - - +
237A ASN* 3.4 5.9 + - - -
238A MET* 3.1 18.4 - - - +
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Residues in contact with HIS 235 (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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143A ILE* 3.7 7.4 - - + +
152A ARG* 3.2 22.9 + - - -
179A TYR* 3.6 38.6 - + + +
182A LEU* 3.8 10.8 - - + -
183A TYR* 2.6 24.4 + - + +
231A ILE 2.9 18.5 + - - +
232A ASP* 3.5 8.5 - - - +
233A ILE 3.2 0.2 - - - -
234A ALA* 1.3 78.4 - - - +
236A THR* 1.3 73.8 + - + +
237A ASN 3.4 1.0 + - - -
238A MET* 3.5 16.9 + - - +
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Residues in contact with THR 236 (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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179A TYR* 5.6 0.9 - - - +
232A ASP* 3.0 22.3 + - + +
233A ILE* 3.3 2.6 + - - -
235A HIS* 1.3 89.8 - - + +
237A ASN* 1.3 76.2 + - - +
238A MET 3.7 0.9 - - - -
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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