Contacts of the helix formed by residues 178 - 196 (chain A) in PDB entry 2WWB
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 GLY 178 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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38A THR* 3.9 24.5 - - - -
42A PHE* 3.7 6.9 - - - -
84A ILE* 6.1 0.4 - - - -
162A VAL* 4.6 4.5 - - - -
166A ASP* 3.2 21.4 + - - -
169A LEU* 3.9 3.4 - - - +
177A SER* 1.3 73.6 + - - +
179A ILE* 1.4 64.5 + - - +
180A SER 3.5 0.2 - - - -
181A LEU 3.6 0.5 + - - -
182A PHE* 3.3 27.9 + - - -
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Residues in contact with ILE 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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84A ILE* 4.1 37.9 - - + +
85A VAL* 4.6 13.7 - - + -
88A GLY* 4.4 15.9 - - - -
166A ASP* 3.6 15.4 + - - +
170A GLN* 5.6 3.4 - - - +
177A SER* 3.4 12.6 - - - +
178A GLY* 1.4 73.9 - - - +
180A SER* 1.4 69.7 + - - +
182A PHE* 3.3 27.1 - - + -
183A ILE* 3.4 11.1 - - + +
293A LEU* 6.2 2.0 - - + -
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Residues in contact with SER 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A SER* 3.4 18.7 + - - -
179A ILE* 1.4 84.6 - - - +
181A LEU* 1.4 63.6 - - - +
182A PHE 3.6 0.2 + - - -
183A ILE* 3.6 17.9 + - - +
184A ALA* 3.9 7.6 + - - +
289A ILE* 5.1 11.1 - - - +
292A ILE* 5.7 7.3 - - - +
453A ILE* 4.6 17.7 - - - +
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Residues in contact with LEU 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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35A THR* 4.6 18.2 - - + +
38A THR* 5.9 0.7 - - - -
39A LEU* 4.2 32.8 - - + -
42A PHE* 4.0 12.6 - - + -
176A GLY* 5.9 0.4 - - - -
177A SER* 3.4 27.5 + - - +
178A GLY 3.6 3.5 + - - +
179A ILE 3.3 0.6 - - - -
180A SER* 1.4 79.8 - - - +
182A PHE* 1.4 59.4 + - - +
183A ILE 3.5 0.3 + - - -
184A ALA* 3.5 10.9 + - + +
185A THR* 2.9 25.1 + - - +
453A ILE* 6.0 3.8 - - + -
454A ILE* 5.9 5.2 - - + -
457A TYR* 4.8 23.1 - - + -
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Residues in contact with PHE 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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42A PHE* 3.6 37.6 - + + -
69A LEU 3.5 2.9 - - - -
70A ALA* 3.4 30.1 - - + -
71A SER* 5.2 0.2 - - - -
72A ASN* 4.0 6.5 + - - +
81A ILE* 3.1 45.1 - - + -
84A ILE* 4.2 15.9 - - + -
85A VAL* 4.6 7.4 - - + -
162A VAL* 4.6 0.9 - - + -
178A GLY 3.3 22.3 + - - -
179A ILE* 3.3 25.1 - - + -
180A SER 3.5 0.2 - - - -
181A LEU* 1.4 75.5 - - - +
183A ILE* 1.4 90.1 + - + +
185A THR* 3.3 10.2 + - - -
186A ASN* 3.4 12.3 + - - +
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Residues in contact with ILE 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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68A ILE* 4.5 23.6 - - + +
69A LEU 3.6 14.8 - - - +
70A ALA* 3.9 9.9 - - + +
85A VAL* 4.2 20.6 - - + -
179A ILE* 3.4 19.1 - - + +
180A SER* 3.8 9.6 - - - +
181A LEU 3.3 0.4 - - - -
182A PHE* 1.4 102.0 - - + +
184A ALA* 1.4 61.3 + - - +
186A ASN* 3.9 5.5 + - - +
187A ILE* 3.4 26.3 + - + +
292A ILE* 5.0 18.2 - - + -
449A LEU* 5.3 5.4 - - + -
453A ILE* 5.2 10.3 - - + -
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Residues in contact with ALA 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 SER 3.9 2.4 + - - +
181A LEU* 3.5 12.3 + - + +
183A ILE* 1.4 79.9 - - - +
185A THR* 1.4 62.7 + - - +
187A ILE* 3.4 18.0 + - - +
188A CYS* 3.6 17.5 + - - -
450A ALA* 4.8 6.4 - - - +
453A ILE* 4.0 27.3 - - + +
454A ILE* 3.8 29.2 - - + +
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Residues in contact with THR 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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39A LEU* 4.0 11.7 - - + +
42A PHE* 3.7 23.2 - - + -
43A LEU 5.9 0.4 - - - +
72A ASN* 3.6 13.9 - - - +
181A LEU* 2.9 17.5 + - - +
182A PHE* 3.3 10.6 + - - -
184A ALA* 1.4 75.9 - - - +
186A ASN* 1.4 62.4 + - - +
187A ILE 3.5 0.5 + - - -
188A CYS* 3.5 15.5 + - - +
189A GLU* 3.6 22.2 + - - +
454A ILE* 5.5 2.5 - - - +
47B MET* 4.5 23.6 - - + +
50B ILE* 5.5 5.8 - - + -
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Residues in contact with ASN 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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67A VAL* 3.6 28.5 + - - +
70A ALA* 3.6 28.4 - - + +
71A SER 3.9 0.8 - - - +
72A ASN* 3.5 38.5 + - - +
73A ARG* 3.7 20.5 + - - +
182A PHE 3.4 3.5 + - - +
183A ILE 4.1 2.5 - - - +
184A ALA 3.4 0.6 - - - -
185A THR* 1.4 77.0 - - - +
187A ILE* 1.4 62.8 + - + +
189A GLU* 3.2 7.4 + - - +
190A THR* 3.0 28.7 + - - -
193A TRP* 4.7 3.6 - - - -
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Residues in contact with ILE 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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67A VAL* 4.1 21.1 - - + +
68A ILE* 5.4 3.6 - - + -
183A ILE* 3.4 31.6 - - + +
184A ALA* 3.4 3.3 + - - +
185A THR 3.3 0.6 - - - -
186A ASN* 1.4 74.4 - - + +
188A CYS* 1.4 64.2 + - - +
190A THR* 3.3 15.7 + - - -
191A ILE* 3.3 21.0 + - + +
441A ILE* 4.1 20.6 - - + -
446A GLY* 3.3 35.2 - - - +
447A ILE* 4.4 1.1 - - - -
449A LEU* 4.8 4.3 - - + -
450A ALA* 3.6 30.7 - - + +
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Residues in contact with CYS 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 ALA 3.6 15.7 - - - -
185A THR* 3.5 3.8 + - - +
186A ASN 3.3 0.6 - - - -
187A ILE* 1.4 77.8 - - - +
189A GLU* 1.4 60.1 + - - +
191A ILE* 3.6 17.8 + - - +
192A VAL* 3.9 7.4 - - - +
450A ALA* 5.3 3.6 - - - -
454A ILE* 4.1 20.9 - - - -
44B PHE* 4.0 33.0 - - + +
47B MET* 3.7 31.4 - - + -
48B GLY* 3.4 14.0 - - - +
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Residues in contact with GLU 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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43A LEU* 4.1 12.5 - - - +
46A CYS* 3.5 15.9 - - - -
72A ASN* 3.4 25.3 - - - +
185A THR* 3.6 15.1 - - - +
186A ASN 3.2 7.1 + - - +
188A CYS* 1.4 72.6 - - - +
190A THR* 1.4 62.0 + - - +
192A VAL* 3.5 6.1 - - - +
193A TRP* 3.2 58.0 + - + -
47B MET 3.3 22.6 - - - +
48B GLY* 3.7 12.3 - - - +
50B ILE* 4.5 1.9 - - - +
51B GLY* 3.8 18.6 + - - -
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Residues in contact with THR 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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67A VAL* 4.9 14.5 - - + +
73A ARG 5.1 1.4 + - - -
186A ASN* 3.0 28.6 + - - -
187A ILE* 3.3 11.5 + - - -
189A GLU* 1.4 74.2 - - - +
191A ILE* 1.4 63.3 + - - +
193A TRP* 3.3 16.5 + - + +
194A LYS* 3.1 50.0 + - + +
441A ILE* 4.1 20.2 - - + +
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Residues in contact with ILE 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 ILE* 3.3 24.8 + - + +
188A CYS* 4.0 6.3 - - - +
189A GLU 3.4 0.6 - - - -
190A THR* 1.4 75.5 - - - +
192A VAL* 1.4 67.2 + - + +
194A LYS* 3.8 3.5 + - - +
195A ALA* 3.6 18.2 + - - +
244A ASN* 4.9 7.1 - - - +
245A LEU* 5.2 7.2 - - + +
248A THR* 3.6 25.4 - - + +
441A ILE* 3.9 27.1 - - + +
447A ILE* 4.3 20.6 - - + -
450A ALA* 5.4 2.5 - - + -
451A VAL* 6.4 0.7 - - + -
44B PHE* 3.8 33.0 - - + -
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Residues in contact with VAL 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 CYS 3.9 8.5 - - - +
189A GLU 3.5 12.6 - - - +
191A ILE* 1.4 81.7 - - + +
193A TRP* 1.4 66.4 + - - +
195A ALA* 3.5 10.3 + - - +
196A PHE* 3.6 24.6 + - + -
209A PHE* 5.9 0.9 - - + -
48B GLY* 3.5 25.1 - - - +
49B PHE* 4.3 17.5 - - + -
52B PHE* 3.6 24.7 - - + -
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Residues in contact with TRP 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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46A CYS* 4.5 10.8 - - + -
72A ASN 4.8 3.1 - - - -
73A ARG 3.6 24.0 - - - -
74A GLY* 4.5 8.1 - - - -
75A THR* 3.7 19.5 - - - -
186A ASN* 4.7 1.8 - - - -
189A GLU* 3.2 53.7 + - + -
190A THR* 3.3 20.4 + - + +
192A VAL* 1.4 78.0 - - - +
194A LYS* 1.4 63.5 + - + +
196A PHE 3.3 4.5 + - - -
197A SER* 2.9 27.2 + - - +
213A ILE* 3.6 6.6 - - + +
48B GLY 4.7 0.2 + - - -
51B GLY* 3.7 15.7 - - - -
52B PHE* 3.5 48.5 - + + +
55B LYS* 3.6 25.8 - - - +
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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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63A TYR* 6.3 1.4 - - - -
190A THR* 3.1 36.0 + - + +
191A ILE 4.0 2.9 - - - +
193A TRP* 1.4 79.2 - - + +
195A ALA* 1.4 60.6 + - - +
196A PHE 3.4 0.5 + - - -
197A SER* 3.5 18.3 + - - +
241A ASN* 3.5 8.0 - - - +
244A ASN* 3.2 36.2 - - + +
441A ILE* 3.7 29.6 - - + +
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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 ILE 3.6 9.4 + - - +
192A VAL* 3.5 12.5 + - + +
193A TRP 3.3 1.0 - - - -
194A LYS* 1.4 78.3 - - - +
196A PHE* 1.4 71.4 + - + +
197A SER 3.5 0.7 - - - -
217A PHE* 3.4 13.2 - - - -
241A ASN* 3.4 32.5 + - - +
244A ASN* 4.3 2.9 - - + +
245A LEU* 3.6 33.2 - - + -
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Residues in contact with PHE 196 (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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192A VAL* 3.6 22.2 - - + +
193A TRP 3.3 6.3 + - - -
194A LYS 3.3 0.2 - - - -
195A ALA* 1.4 86.8 - - + +
197A SER* 1.4 60.6 + - - +
205A ARG* 4.8 7.9 - - - -
209A PHE* 3.7 54.3 - + + -
213A ILE* 3.4 23.5 - - + +
214A ILE 3.0 16.5 - - - +
215A ALA* 3.6 19.7 - - + +
217A PHE* 3.8 28.3 - + + -
218A HIS* 4.2 11.0 - + - -
245A LEU* 5.6 4.5 - - + -
52B PHE* 4.4 5.6 - - + -
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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