Contacts of the helix formed by residues 174 - 195 (chain A) in PDB entry 1WL4
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 174 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172A GLN 3.7 3.0 + - - -
173A VAL* 1.3 77.0 - - - +
175A ARG* 1.3 59.8 + - - +
176A GLU* 3.4 9.3 + - - +
177A ASP* 3.0 35.7 + - - -
178A GLN* 2.9 28.4 + - - +
245A THR* 5.2 1.8 - - - -
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Residues in contact with ARG 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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174A SER* 1.3 72.7 - - - +
176A GLU* 1.3 58.6 + - - +
178A GLN* 3.2 3.9 + - - +
179A ASP* 2.9 45.1 + - - +
231A MET 2.9 24.9 + - - -
232A SER* 3.3 16.1 + - - -
234A LEU 2.8 31.5 + - - -
236A PRO* 4.0 16.8 - - - +
244A GLY 5.2 1.3 + - - +
245A THR* 3.3 43.7 - - + +
247A THR* 3.6 16.9 - - - +
250A ASN* 4.0 3.4 - - - +
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Residues in contact with GLU 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A SER* 3.2 8.5 + - - +
175A ARG* 1.3 81.9 - - - +
177A ASP* 1.3 64.0 + - - +
179A ASP* 3.3 6.3 + - - +
180A LYS* 2.9 60.9 + - + +
228A ILE* 4.7 8.3 - - + -
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Residues in contact with ASP 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A GLN 3.7 6.2 - - - +
173A VAL* 3.7 20.7 - - + +
174A SER* 3.0 40.2 + - - +
176A GLU* 1.3 78.4 - - - +
178A GLN* 1.3 61.5 + - - +
180A LYS* 3.4 14.7 + - - +
181A VAL* 3.1 28.4 + - + +
329A ALA* 5.5 1.6 - - + -
333A LYS* 4.9 4.0 + - - -
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Residues in contact with GLN 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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168A ALA* 3.5 10.1 - - - +
173A VAL* 3.0 35.9 + - + -
174A SER 2.9 11.9 + - - +
175A ARG 3.2 7.4 + - - +
177A ASP* 1.3 74.2 - - - +
179A ASP* 1.3 63.3 + - - +
181A VAL* 3.3 1.6 + - - -
182A ALA* 2.9 25.3 + - - +
245A THR* 2.8 46.0 + - - +
246A VAL* 3.7 12.6 - - - +
250A ASN* 3.6 15.9 + - - +
325A ALA* 3.3 20.9 - - + +
326A ALA* 3.6 20.7 + - - +
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Residues in contact with ASP 179 (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 ARG* 2.9 40.5 + - - +
176A GLU* 4.0 2.0 - - - +
178A GLN* 1.3 76.3 - - - +
180A LYS* 1.3 58.4 + - - +
182A ALA* 3.3 5.6 + - - +
183A VAL* 2.9 33.4 + - - +
228A ILE* 3.7 22.5 - - + +
231A MET* 3.6 33.4 - - + +
232A SER* 3.8 6.2 + - - -
247A THR* 4.5 2.9 + - - -
250A ASN* 2.9 28.6 + - - +
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Residues in contact with LYS 180 (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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176A GLU* 2.9 51.0 + - + +
177A ASP* 3.6 13.9 + - - +
179A ASP* 1.3 77.5 - - - +
181A VAL* 1.3 61.6 + - + +
183A VAL* 3.4 4.9 + - - +
184A LEU* 3.0 25.0 + - - +
228A ILE* 3.7 16.6 - - + -
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Residues in contact with VAL 181 (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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177A ASP 3.1 17.6 + - - +
178A GLN 3.6 7.2 - - - +
180A LYS* 1.3 76.3 - - + +
182A ALA* 1.3 59.2 + - - +
184A LEU* 3.4 10.8 + - + +
185A SER* 2.9 27.7 + - - -
322A GLU* 5.0 6.1 - - - +
325A ALA* 3.9 22.7 - - + +
328A SER* 4.2 16.4 - - - +
329A ALA* 4.2 23.1 - - + -
349A ILE* 4.5 6.5 - - + -
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Residues in contact with ALA 182 (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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178A GLN 2.9 17.2 + - - +
179A ASP 3.6 4.7 - - - +
181A VAL* 1.3 78.0 - - - +
183A VAL* 1.3 56.9 + - - +
185A SER* 3.2 3.6 + - - -
186A GLN* 2.9 32.7 + - - +
231A MET* 3.7 11.7 - - + -
249A ALA 3.3 26.5 - - - +
250A ASN* 3.8 11.4 - - + -
349A ILE* 3.9 16.1 - - + +
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Residues in contact with VAL 183 (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 ASP 2.9 24.1 + - - +
180A LYS* 3.9 5.8 - - - +
182A ALA* 1.3 70.6 - - - +
184A LEU* 1.3 58.8 + - - +
186A GLN* 3.3 4.4 + - - +
187A ASN* 2.8 45.3 + - - +
226A SER* 3.9 13.7 - - - +
227A ASN* 3.7 9.9 - - - +
228A ILE* 3.6 33.4 - - + +
231A MET* 3.8 18.4 - - + -
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Residues in contact with LEU 184 (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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180A LYS 3.0 18.0 + - - +
181A VAL* 3.5 11.7 - - + +
183A VAL* 1.3 78.1 - - - +
185A SER* 1.3 58.6 + - - +
187A ASN* 3.3 7.1 + - + +
188A ARG* 2.9 77.3 + - + +
339A PRO* 5.3 8.7 - - + -
340A GLU* 5.4 0.7 - - - +
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Residues in contact with SER 185 (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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181A VAL 2.9 18.0 + - - -
182A ALA* 3.2 5.8 + - - -
184A LEU* 1.3 77.4 - - - +
186A GLN* 1.3 63.0 + - - +
188A ARG* 4.5 2.9 - - - +
189A THR* 2.9 28.2 + - - -
322A GLU* 2.6 37.8 + - - -
346A GLY* 3.6 8.4 - - - -
347A GLY 3.0 18.4 + - - -
349A ILE* 4.3 7.6 - - - -
350A ALA* 3.8 5.6 + - - -
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Residues in contact with GLN 186 (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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182A ALA 2.9 20.2 + - - +
183A VAL 3.6 4.7 - - - +
185A SER* 1.3 76.6 - - - +
187A ASN* 1.3 58.6 + - - +
189A THR* 3.3 2.8 + - - -
190A GLU* 2.9 31.2 + - - +
221A PHE* 4.9 1.6 + - - -
222A PRO* 3.7 3.5 - - - +
223A ARG* 2.8 38.4 + - - +
224A HIS* 5.4 0.7 - - - -
226A SER* 3.5 31.0 - - - +
231A MET* 4.3 4.7 - - + -
249A ALA 5.2 0.4 + - - -
349A ILE* 3.6 26.5 + - + +
350A ALA* 3.5 18.8 + - + +
1001A COA 3.7 17.2 + - - -
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Residues in contact with ASN 187 (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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183A VAL* 2.8 39.2 + - - +
184A LEU* 3.9 7.4 - - + +
186A GLN* 1.3 73.8 - - - +
188A ARG* 1.3 59.8 + - + +
190A GLU* 3.4 6.9 + - - -
191A ASN* 2.9 38.1 + - - +
225A GLY* 5.1 1.4 - - - +
226A SER 3.9 20.9 + - - +
2002A GOL 3.4 35.8 + - - +
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Residues in contact with ARG 188 (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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184A LEU* 2.9 56.7 + - + +
185A SER* 3.7 3.1 - - - +
187A ASN* 1.3 75.9 - - + +
189A THR* 1.3 58.3 + - - +
191A ASN* 3.4 9.8 + - - +
192A ALA* 2.9 28.4 + - - +
339A PRO* 3.1 20.0 + - - +
340A GLU* 3.1 25.6 + - - +
342A VAL 2.8 28.7 + - - -
343A ASN* 3.2 18.1 + - - +
344A ILE* 3.8 19.5 + - - +
345A GLU* 3.7 3.8 - - - +
346A GLY* 3.5 14.4 - - - +
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Residues in contact with THR 189 (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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185A SER 2.9 19.4 + - - -
186A GLN 3.7 2.2 - - - -
188A ARG* 1.3 75.2 - - - +
190A GLU* 1.3 61.0 + - - +
192A ALA* 3.1 2.4 + - - +
193A GLN* 2.8 42.3 + - + +
198A PHE* 4.4 2.9 - - + -
222A PRO* 3.7 32.5 - - + -
345A GLU 3.0 18.3 + - - -
346A GLY* 3.2 9.2 - - - -
350A ALA* 3.4 14.7 - - + +
351A LEU* 3.8 20.9 - - + +
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Residues in contact with GLU 190 (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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186A GLN 2.9 17.3 + - - +
187A ASN* 3.8 6.2 + - - +
189A THR* 1.3 77.1 - - - +
191A ASN* 1.3 61.8 + - - +
193A GLN* 3.3 10.9 + - - +
194A LYS* 3.0 56.0 + - - +
224A HIS* 3.3 34.8 - - + +
225A GLY* 3.0 25.2 + - - -
2002A GOL 3.3 30.3 + - - +
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Residues in contact with ASN 191 (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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187A ASN* 2.9 24.1 + - - +
188A ARG* 3.7 8.1 - - - +
190A GLU* 1.3 75.8 - - - +
192A ALA* 1.3 63.4 + - - +
194A LYS* 3.3 6.5 + - - +
195A ALA* 3.0 25.8 + - - +
197A HIS* 5.5 1.1 - - - -
2002A GOL 2.7 38.3 + - - -
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Residues in contact with ALA 192 (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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188A ARG 2.9 16.8 + - - +
189A THR 3.1 4.5 + - - +
191A ASN* 1.3 76.7 - - - +
193A GLN* 1.3 62.6 + - - +
195A ALA 3.4 0.9 + - - -
196A GLY 3.1 3.8 + - - -
197A HIS* 2.9 42.6 + - + +
198A PHE* 3.7 22.6 + - + -
345A GLU* 3.5 26.2 - - - +
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Residues in contact with GLN 193 (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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189A THR* 2.8 27.7 + - - +
190A GLU* 3.6 5.5 - - - +
192A ALA* 1.3 77.4 - - - +
194A LYS* 1.3 65.3 + - + +
196A GLY* 3.0 14.4 + - - -
198A PHE* 3.9 22.0 - - + -
199A ASP* 5.1 1.6 - - - +
218A THR* 4.0 16.1 - - + +
219A ASP* 3.8 30.1 + - - +
222A PRO* 3.9 13.9 - - - +
224A HIS* 2.7 37.0 + - + +
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Residues in contact with LYS 194 (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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190A GLU* 3.0 55.3 + - + +
191A ASN* 3.8 7.2 - - - +
193A GLN* 1.3 78.4 - - + +
195A ALA* 1.3 59.4 + - - +
196A GLY 3.2 0.6 + - - -
224A HIS* 3.8 23.6 + - - +
2002A GOL 4.8 4.9 - - - +
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Residues in contact with ALA 195 (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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191A ASN 3.0 17.1 + - - +
192A ALA 3.9 1.1 - - - +
193A GLN 3.1 0.4 - - - -
194A LYS* 1.3 76.4 - - - +
196A GLY* 1.3 61.1 + - - +
197A HIS* 3.5 31.6 + - + +
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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