Contacts of the helix formed by residues 153 - 171 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60A VAL* 4.9 9.4 - - + +
61A MET* 3.8 22.4 - - + -
64A VAL* 4.8 5.1 - - + +
151A GLY 3.4 4.2 + - - +
152A GLU* 1.3 72.4 - - - +
154A LEU* 1.3 63.9 + - - +
155A PRO* 3.4 0.4 - - - +
156A VAL* 3.1 5.7 + - - +
157A ILE* 2.9 47.9 + - + +
311A THR* 4.3 22.4 - - + +
353A ILE 5.3 3.6 - - - +
354A GLY 4.8 12.7 + - - +
355A THR 4.9 2.7 - - - +
356A ALA* 3.9 31.2 - - + +
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Residues in contact with LEU 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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135A THR 5.7 1.6 - - - +
138A ASN 5.6 0.2 - - - +
139A ILE* 3.8 38.7 - - + +
153A VAL* 1.3 79.4 - - + +
155A PRO* 1.3 68.2 - - + +
157A ILE* 3.2 12.9 + - + +
158A PHE* 3.0 24.3 + - - +
312A ILE* 3.7 31.2 - - + -
353A ILE* 3.9 25.8 - - + +
354A GLY* 5.0 13.6 - - - -
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Residues in contact with PRO 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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138A ASN 3.6 21.5 - - - +
139A ILE 3.1 15.3 - - - +
141A PRO* 3.6 28.8 - - + +
147A SER* 3.6 13.0 - - - +
152A GLU* 3.7 27.4 - - + -
153A VAL 3.6 2.5 - - - -
154A LEU* 1.3 93.4 - - + +
156A VAL* 1.3 56.8 + - - +
158A PHE 3.3 0.7 + - - -
159A PHE* 2.9 30.1 + - - +
54B ARG* 6.3 0.2 - - - +
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Residues in contact with VAL 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A MET* 3.6 19.7 - - - -
64A VAL* 4.1 7.6 - - + -
65A LEU* 3.9 23.2 - - + +
141A PRO* 5.7 0.2 - - - -
144A PRO* 4.7 2.0 - - - +
147A SER* 3.4 22.7 - - - +
148A LEU* 3.7 30.7 - - + -
152A GLU 3.3 17.7 - - - +
153A VAL 3.1 8.6 + - - +
155A PRO* 1.3 76.4 - - - +
157A ILE* 1.3 57.9 + - - +
159A PHE* 3.9 6.7 - - + +
160A ALA* 2.9 28.9 + - - +
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Residues in contact with ILE 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A VAL* 3.6 20.0 - - + -
68A LEU* 4.6 12.0 - - + +
153A VAL* 2.9 31.7 + - + +
154A LEU* 3.2 16.6 + - + +
156A VAL* 1.3 77.3 - - - +
158A PHE* 1.3 63.9 + - - +
160A ALA* 3.3 5.3 + - - +
161A ILE* 2.9 28.5 + - + +
308A LEU* 3.9 20.9 - - + -
311A THR* 3.3 27.1 - - - +
312A ILE* 3.6 18.8 - - + -
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Residues in contact with PHE 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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139A ILE* 3.9 26.5 - - + +
140A VAL* 3.6 27.8 - - + -
141A PRO* 3.7 15.9 - - + -
154A LEU 3.0 16.6 + - - +
155A PRO 3.7 2.9 - - - +
157A ILE* 1.3 78.7 - - - +
159A PHE* 1.3 66.3 + - - +
161A ILE* 3.1 15.3 - - + +
162A ILE* 3.0 40.4 + - + +
55B LEU* 4.1 10.1 - - + -
58B MET* 4.1 18.4 - - + -
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Residues in contact with PHE 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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65A LEU* 4.7 14.1 - - + -
141A PRO* 3.9 11.0 - - + -
144A PRO* 3.8 35.2 - - + -
145A PHE* 5.5 7.0 - + - -
148A LEU* 5.6 6.7 - - + -
155A PRO 2.9 17.2 + - - +
156A VAL* 3.9 6.3 - - + +
158A PHE* 1.3 79.9 - - - +
160A ALA* 1.3 59.1 + - - +
162A ILE* 3.2 13.8 - - + +
163A LEU* 2.9 46.4 + - + +
58B MET* 3.9 21.8 - - + -
59B LEU* 5.3 0.4 - - + -
62B PRO* 4.7 2.9 - - + -
192B LEU* 5.6 1.1 - - + -
196B MET* 3.4 35.7 - - + -
199B ILE* 5.2 1.6 - - + -
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Residues in contact with ALA 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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65A LEU* 3.6 37.7 - - + +
68A LEU* 3.9 12.1 - - + -
69A VAL* 3.3 24.4 - - + +
156A VAL 2.9 18.4 + - - +
157A ILE* 3.7 4.3 - - - +
159A PHE* 1.3 78.9 - - - +
161A ILE* 1.3 56.9 + - - +
163A LEU* 3.4 1.2 + - - -
164A GLY 2.9 23.2 + - - -
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Residues in contact with ILE 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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68A LEU* 4.9 8.5 - - + +
72A ALA* 3.7 22.1 - - + +
80A LEU* 5.3 3.8 - - + -
157A ILE* 2.9 19.4 + - + +
158A PHE* 3.1 27.8 - - + +
160A ALA* 1.3 77.2 - - - +
162A ILE* 1.3 65.0 + - + +
164A GLY* 3.3 1.4 + - - -
165A ILE* 3.0 38.5 + - + +
304A PHE* 3.5 35.0 - - + -
308A LEU* 5.4 3.1 - - + -
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Residues in contact with ILE 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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158A PHE* 3.0 37.3 + - + +
159A PHE* 3.2 23.1 - - + +
161A ILE* 1.3 79.6 - - + +
163A LEU* 1.3 62.7 + - - +
165A ILE* 3.4 21.6 + - + +
166A ALA* 2.9 27.5 + - - +
58B MET* 4.7 7.6 - - + -
199B ILE* 3.6 31.9 - - + +
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Residues in contact with LEU 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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65A LEU* 5.9 1.1 - - + -
69A VAL* 4.2 7.9 - - + -
159A PHE* 2.9 36.1 + - + +
160A ALA 3.7 3.8 - - - +
162A ILE* 1.3 75.6 - - - +
164A GLY* 1.3 59.2 + - - +
166A ALA* 3.3 2.0 + - - +
167A ILE* 2.9 44.1 + - + +
185A LEU* 5.0 1.8 - - + -
189A PHE* 3.7 32.5 - - + -
192B LEU* 4.2 14.1 - - + -
195B ALA* 3.8 28.9 - - + -
196B MET* 4.1 22.4 - - + -
199B ILE* 4.2 7.4 - - + -
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Residues in contact with GLY 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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69A VAL* 3.8 24.8 - - - +
72A ALA* 3.6 9.8 - - - +
73A ALA* 3.4 17.3 - - - +
160A ALA 2.9 15.7 + - - -
161A ILE 3.3 3.3 + - - -
163A LEU* 1.3 77.0 - - - +
165A ILE* 1.3 55.6 + - - +
167A ILE* 3.3 1.2 + - - -
168A THR* 2.9 24.6 + - - -
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Residues in contact with ILE 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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72A ALA 4.3 0.2 - - - -
77A PRO* 5.3 6.7 - - + -
80A LEU* 3.6 29.6 - - + -
161A ILE* 3.0 27.2 + - + +
162A ILE* 3.8 21.8 - - + +
164A GLY* 1.3 71.9 - - - +
166A ALA* 1.3 68.8 + - - +
168A THR* 3.2 12.4 - - + +
169A TYR* 2.9 45.8 + - + +
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Residues in contact with ALA 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 ILE 2.9 17.5 + - - +
163A LEU 3.6 5.2 - - - +
165A ILE* 1.3 77.6 - - - +
167A ILE* 1.3 57.5 + - - +
169A TYR* 3.1 10.6 + - - +
170A LEU* 2.9 31.1 + - - +
195B ALA* 3.5 33.9 - - + +
198B LEU* 4.5 9.1 - - + +
199B ILE* 3.7 12.3 - - + -
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Residues in contact with ILE 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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69A VAL* 4.3 19.5 - - + -
73A ALA* 4.0 14.6 - - + -
163A LEU* 2.9 30.4 + - + +
164A GLY 3.7 3.8 - - - +
165A ILE 3.2 0.2 - - - -
166A ALA* 1.3 75.3 - - - +
168A THR* 1.3 60.7 + - - +
170A LEU* 2.9 22.5 + - - +
171A MET* 3.1 21.5 + - + +
182A ALA* 4.1 16.8 - - + +
185A LEU* 4.0 31.6 - - + -
186A LEU* 4.1 23.3 - - + +
191B GLY 5.7 0.2 - - - +
195B ALA* 4.5 13.5 - - + -
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Residues in contact with THR 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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72A ALA 4.3 2.9 - - - +
73A ALA* 3.3 23.3 + - - -
75A ILE 3.3 21.3 + - - +
76A SER* 4.7 0.5 - - - -
77A PRO* 3.6 30.5 - - + +
80A LEU* 5.4 0.4 - - + -
164A GLY 2.9 14.2 + - - +
165A ILE* 3.2 22.9 - - + +
167A ILE* 1.3 76.9 - - - +
169A TYR* 1.3 59.7 - - - +
171A MET* 4.2 12.7 + - - +
172A ASN* 3.0 22.5 - - - +
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Residues in contact with TYR 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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77A PRO* 3.3 39.0 - - + +
165A ILE* 2.9 29.4 + - + +
166A ALA* 3.1 12.3 + - - +
168A THR* 1.3 79.4 - - - +
170A LEU* 1.3 62.5 + - - +
171A MET 3.4 0.2 - - - -
172A ASN* 3.6 16.4 + - - +
173A ARG* 4.2 8.1 - - - +
198B LEU* 4.8 19.5 - - + +
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Residues in contact with LEU 170 (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 ALA 2.9 12.9 + - - +
167A ILE* 2.9 11.1 + - + +
169A TYR* 1.3 73.6 - - - +
171A MET* 1.3 57.5 + - - +
172A ASN 3.0 11.3 + - - -
173A ARG* 3.1 38.7 + - + +
178A VAL* 4.0 18.6 - - + +
179A ARG* 4.4 8.1 - - - -
182A ALA* 3.5 25.4 - - + -
191B GLY* 3.9 7.2 - - - +
194B GLU* 3.8 10.8 - - + -
195B ALA* 3.5 30.7 - - + +
198B LEU* 3.6 30.7 - - + -
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Residues in contact with MET 171 (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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73A ALA 4.2 15.0 - - - +
74A SER* 6.1 0.4 - - - -
167A ILE* 3.1 18.2 + - + +
168A THR* 4.2 9.6 + - - +
169A TYR 3.4 1.0 - - - -
170A LEU* 1.3 73.4 - - - +
172A ASN* 1.3 67.2 + - - +
173A ARG 3.6 0.7 - - - -
179A ARG* 4.2 28.1 + - + +
182A ALA* 4.2 14.6 - - + -
183A GLU* 3.8 31.4 - - + +
186A LEU* 3.8 27.8 - - + -
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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