Contacts of the helix formed by residues 143 - 161 (chain A) in PDB entry 2EE5
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 143 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A LEU* 3.8 16.6 - - + +
28A GLN* 3.6 40.6 - - + +
31A VAL* 3.9 14.1 - - + -
36A PRO* 4.1 9.9 - - + +
141A HIS* 3.0 29.3 - - + +
142A PRO* 1.3 88.2 - - + +
144A ASN* 1.3 64.8 + - - +
145A TYR 3.4 0.2 - - - -
146A ASP* 4.1 6.2 + - - +
147A VAL* 3.7 17.2 + - - +
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Residues in contact with ASN 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LEU* 4.0 20.6 - - - +
104A LEU* 4.3 13.1 - - - +
106A ASP* 4.6 13.2 + - - +
108A LEU* 3.6 43.4 - - + +
140A PHE* 5.6 2.5 - - + -
141A HIS* 3.5 25.4 + - + +
143A VAL* 1.3 79.6 - - - +
145A TYR* 1.3 62.4 + - - +
146A ASP 3.2 0.7 - - - -
147A VAL* 3.1 6.8 + - - +
148A PHE* 2.8 32.8 + - - +
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Residues in contact with TYR 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A VAL* 3.1 45.0 - - + +
138A LYS* 4.5 9.1 - - + +
140A PHE* 3.6 19.7 - - + +
141A HIS 2.7 26.2 + - - +
142A PRO* 4.4 3.6 - - + -
144A ASN* 1.3 72.6 - - - +
146A ASP* 1.3 82.2 + - - +
148A PHE* 3.5 6.3 + - - +
149A ARG* 3.1 65.4 + - + +
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Residues in contact with ASP 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A PRO* 3.1 29.5 - - + +
37A ILE* 3.6 24.8 - - + +
142A PRO* 3.2 18.4 - - - +
143A VAL 4.1 4.6 + - - +
144A ASN 3.2 0.2 - - - -
145A TYR* 1.3 96.0 - - - +
147A VAL* 1.3 62.3 + - - +
149A ARG* 3.3 5.1 + - - +
150A TYR 3.1 17.0 + - - -
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Residues in contact with VAL 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LEU* 4.1 10.3 - - + -
37A ILE* 3.9 17.7 - - + +
38A PRO* 3.4 36.1 - - + -
41A VAL* 4.8 5.2 - - + -
101A PHE* 3.3 37.7 - - + -
108A LEU* 5.1 2.2 - - + -
143A VAL 3.7 16.6 - - - +
144A ASN* 3.1 7.1 + - - +
146A ASP* 1.3 70.4 - - - +
148A PHE* 1.3 69.2 + - - +
149A ARG 2.9 1.8 - - - -
150A TYR* 2.7 15.1 + - - +
151A VAL* 2.8 17.6 + - + +
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Residues in contact with PHE 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A LEU* 3.1 35.8 - - + +
109A ILE* 4.8 11.9 - - + -
117A LEU* 6.3 0.4 - - + -
137A VAL* 4.3 10.8 - - + -
140A PHE* 4.2 27.8 - + + -
144A ASN 2.8 21.7 + - - +
145A TYR* 3.7 6.5 - - - +
147A VAL* 1.3 72.5 - - - +
149A ARG* 1.3 62.7 + - + +
151A VAL* 3.7 7.5 + - + +
152A ILE* 3.2 60.7 + - + +
180A LEU* 4.2 18.4 - - + -
201A VAL* 5.9 7.0 - - + -
204A PHE* 4.1 29.2 - + + -
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Residues in contact with ARG 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A VAL* 5.5 7.4 - - + -
145A TYR* 3.1 54.6 + - + +
146A ASP* 3.4 10.5 - - - +
147A VAL 2.8 4.4 + - - -
148A PHE* 1.3 74.5 - - + +
150A TYR* 1.3 59.9 + - - +
152A ILE* 3.9 5.5 - - - +
153A THR* 2.6 37.9 + - - -
208A CYS* 4.7 13.9 + - - -
211A PHE* 6.1 2.7 - - - +
212A PHE* 3.4 47.3 - - - +
213A TYR* 4.9 11.7 - - - -
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Residues in contact with TYR 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ILE* 3.4 32.5 - - + -
41A VAL* 4.4 9.9 - - + -
42A GLU* 3.7 30.3 + - + +
45A VAL* 3.6 36.5 - - + +
46A GLU* 3.0 36.2 + - - +
49A GLU* 5.4 0.3 + - - -
146A ASP 3.1 5.0 + - - +
147A VAL* 2.7 11.3 + - + +
149A ARG* 1.3 72.4 - - - +
151A VAL* 1.3 65.6 + - + +
153A THR* 3.2 22.9 - - + -
154A HIS* 3.5 5.4 + - - +
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Residues in contact with VAL 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A VAL* 4.4 9.9 - - + -
45A VAL* 5.3 4.0 - - + -
59A TYR* 5.6 1.8 - - - +
97A LEU* 5.5 7.6 - - + -
101A PHE* 3.4 38.6 - - + -
108A LEU* 6.1 0.4 - - + -
147A VAL* 2.8 27.3 + - + +
148A PHE* 3.9 7.9 - - + +
150A TYR* 1.3 74.6 - - - +
152A ILE* 1.3 67.0 + - + +
154A HIS* 2.8 23.9 + - + +
155A LEU* 3.3 19.4 + - + +
176A PHE* 4.5 20.4 - - + -
180A LEU* 6.5 1.6 - - + -
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Residues in contact with ILE 152 (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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148A PHE* 3.2 58.6 + - + +
149A ARG* 3.9 5.2 - - + +
151A VAL* 1.3 79.8 - - + +
153A THR* 1.3 66.5 + - - +
155A LEU* 2.6 32.7 + - + +
156A ASN* 3.0 11.4 + - - +
201A VAL* 5.7 2.7 - - + +
204A PHE* 4.0 18.4 - - + -
205A ILE* 3.2 38.4 - - + -
208A CYS* 3.6 17.7 - - + -
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Residues in contact with THR 153 (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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49A GLU* 6.0 0.2 - - - +
149A ARG* 2.6 27.4 + - - +
150A TYR* 3.2 16.6 - - + -
152A ILE* 1.3 76.2 - - - +
154A HIS* 1.3 59.0 + - - +
156A ASN* 4.0 8.7 - - - +
157A ARG* 3.8 26.4 + - - +
208A CYS* 4.0 16.4 - - - -
209A GLN* 4.7 12.8 + - - +
213A TYR* 4.9 13.9 - - + +
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Residues in contact with HIS 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A VAL* 3.6 31.7 - - + +
48A ILE* 4.0 19.4 - - + +
49A GLU* 3.4 25.8 + - + +
53A LEU* 3.1 31.1 - - + +
58A LEU* 3.4 23.0 - - - +
59A TYR* 3.4 21.1 + + - -
150A TYR 3.5 2.2 + - - +
151A VAL* 2.8 11.8 + - + +
152A ILE 2.7 3.6 + - - -
153A THR* 1.3 75.7 - - - +
155A LEU* 1.3 72.2 + - + +
156A ASN 3.2 0.2 - - - -
157A ARG* 2.8 21.6 + - - +
158A VAL* 3.3 10.7 + - + +
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Residues in contact with LEU 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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59A TYR* 3.6 19.7 - - + +
151A VAL* 3.8 16.6 - - + +
152A ILE* 2.6 31.1 + - + +
154A HIS* 1.3 75.3 - - + +
156A ASN* 1.3 55.4 + - - +
158A VAL* 2.7 27.4 + - - +
159A SER* 2.9 10.0 + - - -
172A LEU* 3.6 20.2 - - + +
176A PHE* 3.4 40.8 - - + -
180A LEU* 6.5 1.1 - - + -
201A VAL* 6.0 1.6 - - + -
205A ILE* 3.5 34.3 - - + -
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Residues in contact with ASN 156 (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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152A ILE 3.0 7.9 + - - +
153A THR* 4.0 11.9 - - - +
154A HIS 3.2 0.2 - - - -
155A LEU* 1.3 75.6 - - - +
157A ARG* 1.3 61.8 + - + +
159A SER* 2.8 25.1 + - - -
160A GLN* 2.9 24.4 + - - +
205A ILE* 2.7 40.4 + - + +
206A GLN* 3.8 15.0 + - - +
208A CYS* 3.9 11.0 - - + +
209A GLN* 4.0 21.7 - - - +
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Residues in contact with ARG 157 (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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49A GLU* 2.6 55.6 + - - +
53A LEU* 3.2 24.0 - - + +
153A THR* 3.8 24.5 + - - +
154A HIS 2.8 10.3 + - - +
156A ASN* 1.3 78.1 - - + +
158A VAL* 1.3 60.0 + - - +
160A GLN* 3.3 32.8 + - - +
161A GLN* 3.6 7.6 + - - +
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Residues in contact with VAL 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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53A LEU* 3.9 14.6 - - + -
58A LEU* 3.2 34.5 - - + -
59A TYR* 4.9 1.6 - - + -
154A HIS* 3.4 37.7 - - + +
155A LEU* 2.7 15.0 + - - +
157A ARG* 1.3 70.0 - - - +
159A SER* 1.3 64.6 + - - +
160A GLN 3.2 0.3 + - - -
161A GLN 3.3 3.3 + - - -
162A HIS 3.3 6.4 + - - -
165A ASN* 2.6 40.2 - - + +
167A MET* 4.2 6.5 - - + -
172A LEU* 3.8 15.9 - - + -
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Residues in contact with SER 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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155A LEU 2.9 10.5 + - - -
156A ASN* 2.8 26.6 + - - -
158A VAL* 1.3 76.9 - - - +
160A GLN* 1.3 64.3 + - - +
162A HIS* 3.3 22.5 + - - +
167A MET 3.4 11.7 - - - -
168A THR* 3.8 2.4 - - - +
169A ALA* 3.3 37.8 - - - +
172A LEU* 4.0 1.3 - - - +
205A ILE* 4.7 0.9 - - - +
206A GLN* 4.8 5.7 + - - -
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Residues in contact with GLN 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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156A ASN* 2.9 41.3 + - - +
157A ARG* 3.3 23.3 - - - +
158A VAL 3.1 0.6 - - - -
159A SER* 1.3 86.4 + - - +
161A GLN* 1.3 64.4 + - + +
162A HIS 3.4 2.3 + - - -
163A LYS* 4.3 15.8 + - - +
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Residues in contact with GLN 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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53A LEU* 4.2 22.5 + - - +
54A CYS* 5.2 2.5 - - - +
157A ARG 3.6 9.3 + - - +
158A VAL 3.3 7.7 + - - +
160A GLN* 1.3 80.4 - - + +
162A HIS* 1.3 58.0 + - - +
163A LYS* 3.0 4.9 - - - +
164A ILE* 2.9 43.1 + - + +
165A ASN* 2.9 24.1 + - - +
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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