Contacts of the helix formed by residues 137 - 159 (chain G) in PDB entry 6C3P
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 ILE 137 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133G PRO 2.9 6.0 + - - +
134G LYS* 3.0 30.5 - - + +
136G LEU* 1.3 73.4 - - - +
138G ALA* 1.3 64.2 + - - +
139G LEU 3.0 1.1 - - - -
140G LEU* 2.8 43.9 + - + +
141G VAL* 3.2 14.1 + - + +
186G GLU* 3.9 13.2 - - - +
190G ILE* 5.8 4.9 - - + -
195G TYR* 2.9 30.1 - - + +
196G ILE* 5.4 6.7 - - + -
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Residues in contact with ALA 138 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38G PHE* 5.4 5.8 - - + -
39G LEU* 4.9 8.5 - - + +
42G ILE* 5.3 14.1 - - + -
43G THR* 5.5 5.2 - - + -
123G TYR* 5.2 3.6 - - - +
134G LYS 4.5 0.4 + - - +
135G LEU 3.6 16.6 + - - +
136G LEU 3.0 0.6 - - - +
137G ILE* 1.3 84.8 - - - +
139G LEU* 1.3 60.0 + - + +
141G VAL* 3.5 6.0 + - - +
142G TYR* 2.9 31.3 + - - +
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Residues in contact with LEU 139 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G LEU* 4.5 10.3 - - + -
120G SER* 4.2 24.9 - - - +
123G TYR* 3.6 36.3 - - + -
124G TYR* 5.8 9.6 - - + -
136G LEU* 2.8 23.4 + - + +
138G ALA* 1.3 78.6 - - + +
140G LEU* 1.3 62.9 - - - +
142G TYR* 4.1 12.1 - - + -
143G TRP* 2.8 57.8 + - + +
186G GLU* 4.4 10.3 - - - +
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Residues in contact with LEU 140 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137G ILE* 2.8 35.4 + - + +
139G LEU* 1.3 79.6 - - - +
141G VAL* 1.3 69.9 + - + +
143G TRP* 3.8 2.9 - - - +
144G THR* 2.9 33.2 + - + +
183G LEU* 3.6 25.4 - - + -
186G GLU* 3.8 26.2 - - + -
187G VAL* 5.1 7.4 - - + -
190G ILE* 6.3 2.9 - - + -
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Residues in contact with VAL 141 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38G PHE* 5.4 9.2 - - + -
137G ILE* 3.2 16.4 + - + +
138G ALA* 4.0 6.7 - - - +
140G LEU* 1.3 83.0 - - + +
142G TYR* 1.3 62.2 + - - +
144G THR* 2.2 29.2 + - - +
145G LEU* 2.9 26.0 + - + +
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Residues in contact with TYR 142 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G PRO* 2.8 42.6 - - + -
36G HIS* 3.0 25.5 - + - -
38G PHE* 4.6 9.4 - + + -
39G LEU* 3.4 47.8 - - + -
116G ALA* 3.3 18.0 - - + +
120G SER* 5.4 0.2 - - - -
138G ALA 2.9 19.3 + - - +
139G LEU* 3.6 3.8 - - + +
140G LEU 3.1 0.2 - - - -
141G VAL* 1.3 77.8 - - - +
143G TRP* 1.3 101.9 + + - +
145G LEU* 3.0 11.0 + - + +
146G ALA* 3.0 22.4 + - + +
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Residues in contact with TRP 143 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G THR* 6.0 4.7 - - + -
81G LEU* 4.0 16.8 - - + -
117G ALA* 5.4 6.5 - - + -
120G SER* 4.2 23.3 - - - -
139G LEU* 2.8 59.6 + - + +
140G LEU* 4.0 3.1 - - - +
142G TYR* 1.3 90.2 - + - +
144G THR* 1.3 57.6 + - - +
146G ALA* 3.8 5.6 - - + +
147G PHE* 2.8 32.3 + - - +
179G TYR* 3.5 47.1 - + + +
182G LEU* 3.3 46.5 - - + +
183G LEU* 4.9 14.1 - - + +
186G GLU* 5.3 2.0 - - + -
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Residues in contact with THR 144 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140G LEU* 2.9 27.3 + - + +
141G VAL* 2.2 36.4 + - - +
143G TRP* 1.3 77.5 - - - +
145G LEU* 1.3 60.0 + - - +
147G PHE* 3.7 6.0 - - - +
148G ILE* 2.9 44.6 + - - +
183G LEU* 3.8 23.3 - - + -
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Residues in contact with LEU 145 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G VAL* 6.4 1.1 - - + -
35G PRO* 4.0 20.9 - - + -
38G PHE* 4.5 24.0 - - + -
141G VAL* 2.9 32.2 + - + +
142G TYR* 3.4 11.7 - - - +
144G THR* 1.3 79.3 + - - +
146G ALA* 1.3 64.0 + - - +
148G ILE* 3.2 13.7 + - + +
149G THR* 3.0 28.8 + - + +
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Residues in contact with ALA 146 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G PRO* 3.9 14.5 - - + +
36G HIS* 4.4 14.1 - - + +
142G TYR* 3.0 18.6 + - + +
143G TRP* 3.9 10.3 - - + +
145G LEU* 1.3 75.8 - - - +
147G PHE* 1.3 63.6 + - - +
149G THR* 2.6 23.2 + - - -
150G LYS* 2.9 15.8 + - + +
179G TYR* 3.9 23.6 - - + -
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Residues in contact with PHE 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143G TRP 2.8 19.3 + - - +
144G THR* 3.7 6.3 - - - +
146G ALA* 1.3 77.0 - - - +
148G ILE* 1.3 64.7 + - + +
150G LYS* 3.3 0.9 + - - +
151G THR* 2.9 52.9 + - + +
176G VAL* 3.2 41.1 - - + -
179G TYR* 3.5 18.5 - - + +
180G GLY* 3.5 24.9 - - - -
183G LEU* 5.9 7.0 - - + -
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Residues in contact with ILE 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144G THR* 2.9 32.9 + - - +
145G LEU* 3.6 13.2 - - + +
147G PHE* 1.3 83.1 - - + +
149G THR* 1.3 66.5 + - + +
151G THR* 2.5 23.0 + - - +
152G ILE* 2.9 26.9 + - + +
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Residues in contact with THR 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G VAL* 5.8 0.5 - - - +
31G LEU* 3.9 36.7 - - + +
32G ASN* 3.0 30.6 + - - +
35G PRO* 3.9 12.8 - - + +
145G LEU* 3.0 14.8 + - + +
146G ALA* 2.6 26.3 + - - -
148G ILE* 1.3 78.7 - - + +
150G LYS* 1.3 59.0 + - - +
152G ILE* 3.3 7.9 + - - +
153G LYS* 2.9 23.7 + - - +
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Residues in contact with LYS 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G ASN* 3.9 21.1 - - + +
36G HIS* 6.1 4.0 - - + +
88G GLU* 4.1 20.8 + - - -
146G ALA* 2.9 21.6 + - - +
147G PHE 3.9 2.9 - - - +
149G THR* 1.3 74.3 - - - +
151G THR* 1.3 61.4 + - - +
153G LYS* 3.3 26.4 + - + +
154G PHE* 2.9 29.3 + - - +
172G THR* 4.3 14.3 + - - +
175G LEU* 3.9 24.8 - - - +
176G VAL* 3.6 15.2 - - + +
179G TYR* 3.4 27.4 - - + +
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Residues in contact with THR 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147G PHE* 2.9 49.0 + - + +
148G ILE* 2.5 27.5 + - - +
150G LYS* 1.3 75.5 - - - +
152G ILE* 1.3 59.3 + - - +
154G PHE* 3.2 3.1 + - - +
155G VAL* 2.9 38.9 + - - +
176G VAL* 3.6 21.5 - - + -
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Residues in contact with ILE 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G LEU* 3.8 29.8 - - + -
28G VAL* 4.4 14.8 - - + -
31G LEU* 5.4 10.3 - - + -
148G ILE* 2.9 32.0 + - + +
149G THR* 3.5 9.9 - - - +
150G LYS 3.3 0.2 - - - -
151G THR* 1.3 80.2 + - - +
153G LYS* 1.3 63.0 + - - +
155G VAL* 4.7 5.6 - - + -
156G LYS* 3.0 30.8 + - + +
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Residues in contact with LYS 153 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G VAL* 4.7 21.1 - - + +
29G ASP* 5.4 11.7 - - - +
32G ASN* 3.2 27.8 - - - +
88G GLU* 5.6 3.1 - - - -
149G THR 2.9 14.0 + - - +
150G LYS* 3.3 30.4 + - - +
152G ILE* 1.3 77.7 - - - +
154G PHE* 1.3 56.2 + - - +
156G LYS* 3.7 1.7 - - - +
157G PHE* 2.8 38.9 + - + +
168G ARG* 4.5 21.5 - - - +
172G THR* 3.4 25.5 + - + +
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Residues in contact with PHE 154 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150G LYS 2.9 17.2 + - - +
151G THR* 3.6 4.7 - - - +
153G LYS* 1.3 74.5 - - - +
155G VAL* 1.3 76.5 + - + +
157G PHE* 2.8 15.1 + + - +
158G LEU* 3.0 15.7 + - + +
169G PHE* 3.4 46.2 - + - -
172G THR* 3.6 17.0 - - + +
173G GLY* 3.7 34.8 - - - -
176G VAL* 4.1 11.7 - - + -
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Residues in contact with VAL 155 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151G THR* 2.9 27.9 + - - +
152G ILE* 3.9 8.1 - - + +
154G PHE* 1.3 80.1 - - + +
156G LYS* 1.3 78.9 + - + +
158G LEU* 3.0 28.4 + - + +
159G ASP 4.1 1.4 + - - -
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Residues in contact with LYS 156 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G LEU* 4.1 34.8 - - + +
23G ASN* 4.7 15.7 - - - +
28G VAL* 5.2 6.3 - - + -
152G ILE* 3.0 31.7 + - + +
153G LYS* 3.7 2.7 - - - +
155G VAL* 1.3 92.1 - - + +
157G PHE* 1.3 51.8 + - - +
159G ASP* 2.7 24.2 - - - +
160G HIS* 3.6 13.1 - - + +
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Residues in contact with PHE 157 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153G LYS* 2.8 29.2 + - + +
154G PHE* 2.8 12.3 + + - +
156G LYS* 1.3 76.1 - - - +
158G LEU* 1.3 66.1 + - - +
159G ASP 3.2 5.8 - - - +
161G ALA* 3.5 26.1 - - + +
163G GLY* 4.1 22.7 - - - -
165G SER 4.6 0.4 - - - -
168G ARG* 3.5 38.6 - - + -
169G PHE* 3.4 52.2 - + + -
172G THR* 5.0 7.0 - - + -
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Residues in contact with LEU 158 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154G PHE* 3.0 13.1 + - + +
155G VAL* 3.0 14.8 + - - +
157G PHE* 1.3 79.7 - - - +
159G ASP* 1.3 66.5 + - + +
161G ALA 4.4 6.6 - - - +
169G PHE* 4.3 25.6 - - + -
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Residues in contact with ASP 159 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155G VAL 4.1 2.2 + - - -
156G LYS* 2.7 21.7 + - - +
157G PHE 3.2 3.5 - - - +
158G LEU* 1.3 87.7 - - + +
160G HIS* 1.3 57.3 + - + +
161G ALA 2.7 19.0 + - - -
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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
------------------------------------------------------------
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