Contacts of the helix formed by residues 153 - 171 (chain B) in PDB entry 6XWQ
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 VAL 153 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60B VAL* 5.2 6.5 - - + -
61B MET* 3.7 23.3 - - + -
64B VAL* 4.7 8.1 - - + -
151B GLY 3.3 5.4 + - - +
152B GLU* 1.3 73.4 - - - +
154B LEU* 1.3 70.4 + - + +
155B PRO* 3.3 0.4 - - - +
156B VAL* 2.8 16.9 + - - +
157B ILE* 2.9 21.6 + - + -
311B THR* 3.5 32.3 - - + +
353B ILE 5.5 2.5 - - - +
354B GLY 5.0 12.0 + - - +
355B THR 5.5 0.9 - - - +
356B ALA* 4.0 29.8 - - + +
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Residues in contact with LEU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B THR 5.8 1.3 - - - +
138B ASN 5.6 0.2 - - - +
139B ILE* 4.0 37.0 - - + +
153B VAL* 1.3 78.7 - - + +
155B PRO* 1.3 67.9 - - + +
157B ILE* 3.1 16.8 + - + +
158B PHE* 2.9 22.3 + - - +
312B ILE* 3.7 29.6 - - + -
353B ILE* 3.9 27.4 - - + +
354B GLY* 5.0 12.8 + - - -
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Residues in contact with PRO 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138B ASN 3.6 21.5 - - - +
139B ILE 3.0 15.0 - - - +
141B PRO* 3.6 20.1 - - + +
147B SER* 3.3 28.5 - - - +
152B GLU* 3.9 21.5 - - + -
153B VAL 3.6 2.7 - - - -
154B LEU* 1.3 92.8 - - + +
156B VAL* 1.3 55.6 + - - +
158B PHE 3.3 0.5 + - - -
159B PHE* 2.9 30.3 + - - +
54C ARG* 6.1 0.4 - - - +
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Residues in contact with VAL 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B MET* 3.6 19.7 - - - -
64B VAL* 4.0 10.1 - - + -
65B LEU* 4.0 29.5 - - + +
144B PRO* 4.7 1.6 - - - +
147B SER* 3.5 30.3 - - - +
148B LEU* 3.6 26.7 - - + -
152B GLU 3.5 4.9 - - - +
153B VAL 2.8 12.6 + - - +
155B PRO* 1.3 73.3 - - - +
157B ILE* 1.3 58.3 + - - +
159B PHE* 3.8 6.3 - - + +
160B ALA* 2.9 29.3 + - - +
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Residues in contact with ILE 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B VAL* 3.5 23.1 - - + -
68B LEU* 4.7 11.8 - - + +
153B VAL* 2.9 19.2 + - + +
154B LEU* 3.1 18.1 + - + +
156B VAL* 1.3 77.5 - - - +
158B PHE* 1.3 58.5 + - - +
160B ALA* 3.3 4.5 + - - +
161B ILE* 2.9 34.0 + - + +
308B LEU* 3.8 22.2 - - + -
311B THR* 3.6 23.8 - - + -
312B ILE* 3.6 28.0 - - + -
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Residues in contact with PHE 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B ILE* 3.9 27.4 - - + +
140B VAL* 3.6 26.9 - - + -
141B PRO* 3.8 15.5 - - + -
154B LEU 2.9 14.7 + - - +
155B PRO 3.8 3.1 - - - +
157B ILE* 1.3 78.8 - - - +
159B PHE* 1.3 67.4 + - - +
161B ILE* 3.2 16.7 - - + +
162B ILE* 3.0 40.2 + - + +
55C LEU* 4.1 14.8 - - + -
58C MET* 4.3 11.4 - - + -
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Residues in contact with PHE 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65B LEU* 4.6 14.6 - - + -
141B PRO* 4.0 11.4 - - + -
144B PRO* 3.8 35.9 - - + -
145B PHE* 5.6 6.7 - + - -
148B LEU* 5.7 5.8 - - + -
155B PRO 2.9 16.9 + - - +
156B VAL* 3.9 6.5 - - + +
158B PHE* 1.3 80.6 - - - +
160B ALA* 1.3 60.2 + - - +
162B ILE* 3.2 14.3 - - + +
163B LEU* 2.9 47.2 + - + +
58C MET* 4.0 20.4 - - + -
59C LEU* 5.6 0.4 - - + -
62C PRO* 4.6 4.3 - - + -
192C LEU* 5.6 1.3 - - + -
196C MET* 3.4 35.0 - - + -
199C ILE* 5.3 0.9 - - + -
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Residues in contact with ALA 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65B LEU* 3.6 26.5 - - + +
68B LEU* 3.9 12.6 - - + -
69B VAL* 3.4 33.3 - - + +
156B VAL 2.9 18.5 + - - +
157B ILE* 3.8 3.8 - - - +
159B PHE* 1.3 77.2 - - - +
161B ILE* 1.3 57.3 + - - +
163B LEU* 3.4 1.9 + - - -
164B GLY* 2.9 24.3 + - - -
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Residues in contact with ILE 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68B LEU* 4.8 8.5 - - + +
72B ALA* 3.6 22.6 - - + +
80B LEU* 5.3 2.5 - - + -
157B ILE* 2.9 20.6 + - + +
158B PHE* 3.2 26.9 - - + +
160B ALA* 1.3 76.9 - - - +
162B ILE* 1.3 65.0 + - + +
164B GLY* 3.3 1.4 + - - -
165B ILE* 3.0 40.9 + - + +
304B PHE* 3.5 33.7 - - + -
308B LEU* 5.2 4.7 - - + -
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Residues in contact with ILE 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158B PHE* 3.0 38.0 + - + +
159B PHE* 3.2 23.3 - - + +
161B ILE* 1.3 80.7 - - + +
163B LEU* 1.3 62.2 + - - +
165B ILE* 3.4 21.2 + - + +
166B ALA* 2.9 28.1 + - - +
58C MET* 4.9 4.7 - - + -
199C ILE* 3.8 34.9 - - + +
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Residues in contact with LEU 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65B LEU* 5.9 0.7 - - + -
69B VAL* 4.4 7.0 - - + -
159B PHE* 2.9 36.7 + - + +
160B ALA* 3.7 5.2 - - - +
161B ILE 3.3 0.2 - - - -
162B ILE* 1.3 74.9 - - - +
164B GLY* 1.3 59.5 + - - +
166B ALA* 3.3 2.0 + - - +
167B ILE* 2.9 43.4 + - + +
185B LEU* 5.0 2.0 - - + -
189B PHE* 3.6 32.5 - - + -
192C LEU* 4.2 15.3 - - + -
195C ALA* 3.7 29.6 - - + -
196C MET* 4.1 21.1 - - + -
199C ILE* 4.2 7.6 - - + -
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Residues in contact with GLY 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B VAL* 4.0 11.8 - - - +
72B ALA 3.0 20.5 - - - +
73B ALA* 3.4 18.2 - - - +
160B ALA 2.9 15.9 + - - -
161B ILE 3.7 2.7 - - - -
162B ILE 3.3 0.2 - - - -
163B LEU* 1.3 77.9 - - - +
165B ILE* 1.3 56.5 + - - +
167B ILE* 3.2 1.1 + - - -
168B THR* 2.9 24.8 + - - +
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Residues in contact with ILE 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72B ALA 4.0 0.2 - - - -
77B PRO* 4.9 6.7 - - + -
80B LEU* 3.7 30.3 - - + -
161B ILE* 3.0 27.2 + - + +
162B ILE* 3.8 21.3 - - + +
163B LEU 3.3 0.2 - - - -
164B GLY* 1.3 75.7 - - - +
166B ALA* 1.3 64.1 + - - +
168B THR* 3.1 11.2 - - + +
169B TYR* 3.0 44.6 + - + -
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Residues in contact with ALA 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162B ILE 2.9 17.8 + - - +
163B LEU 3.6 4.9 - - - +
165B ILE* 1.3 78.2 - - - +
167B ILE* 1.3 58.4 + - - +
169B TYR* 3.3 7.2 + - - +
170B LEU* 2.9 32.9 + - - +
195C ALA* 3.6 34.1 - - + +
198C LEU* 4.4 10.0 - - + +
199C ILE* 3.7 11.9 - - + -
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Residues in contact with ILE 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B VAL* 4.4 19.7 - - + -
73B ALA* 4.1 11.2 - - + -
163B LEU* 2.9 24.7 + - + +
164B GLY 3.7 3.8 - - - +
166B ALA* 1.3 79.0 - - - +
168B THR* 1.3 59.0 + - - +
170B LEU* 3.1 8.1 + - + +
171B MET* 3.0 34.9 + - + +
182B ALA* 4.2 13.7 - - + +
185B LEU* 3.9 35.0 - - + -
186B LEU* 4.0 28.9 - - + +
189B PHE* 5.0 0.2 - - + -
195C ALA* 4.5 13.0 - - + -
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Residues in contact with THR 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72B ALA 4.4 3.1 - - - +
73B ALA 3.4 26.2 + - - -
74B SER 5.2 0.5 - - - -
75B ILE 3.5 16.9 + - - +
76B SER* 4.5 1.7 - - - -
77B PRO* 3.7 32.1 - - + +
80B LEU* 5.5 0.2 - - + -
164B GLY 2.9 13.9 + - - +
165B ILE* 3.1 20.2 - - + +
167B ILE* 1.3 77.1 - - - +
169B TYR* 1.3 58.2 - - - +
171B MET* 4.2 12.7 + - - +
172B ASN* 3.3 22.2 + - - +
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Residues in contact with TYR 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77B PRO* 3.4 34.3 - - + +
165B ILE* 3.0 40.7 + - + +
166B ALA* 3.6 7.2 - - - +
167B ILE 3.1 0.2 - - - -
168B THR* 1.3 77.5 - - - +
170B LEU* 1.3 64.4 + - - +
171B MET 3.3 0.4 - - - -
172B ASN* 3.4 21.5 + - + +
173B ARG* 4.1 4.2 - - - +
198C LEU* 4.9 17.9 - - + -
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Residues in contact with LEU 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166B ALA 2.9 18.1 + - - +
167B ILE* 3.1 4.5 + - + +
169B TYR* 1.3 75.1 - - - +
171B MET* 1.3 65.7 + - - +
172B ASN 3.0 1.4 + - - -
173B ARG* 3.1 33.8 - - + +
178B VAL* 3.9 21.3 - - + +
179B ARG* 4.4 6.8 + - - -
182B ALA* 3.6 26.5 - - + -
191C GLY* 3.8 8.3 - - - +
194C GLU* 3.7 11.7 - - + -
195C ALA* 3.3 36.6 - - + +
198C LEU* 3.6 29.2 - - + -
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Residues in contact with MET 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73B ALA 3.8 22.4 - - - +
74B SER* 5.5 1.6 - - - -
167B ILE* 3.0 19.7 + - + +
168B THR* 4.4 14.8 - - - +
169B TYR 3.3 0.8 - - - -
170B LEU* 1.3 75.3 - - - +
172B ASN* 1.3 63.8 + - - +
173B ARG 3.4 3.5 + - - -
179B ARG* 3.7 29.5 + - + +
182B ALA* 4.2 15.5 - - + -
183B GLU* 4.6 24.9 - - + +
186B LEU* 3.8 26.7 - - + -
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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