Contacts of the helix formed by residues 152 - 169 (chain A) in PDB entry 2FW0
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 HIS 152 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A GLU* 3.0 25.8 + - + +
150A PRO 3.2 2.2 + - - -
151A GLY* 1.3 78.1 - - - +
153A PRO* 1.3 79.8 - - + +
154A ASP* 2.9 53.8 + - + +
155A ALA 3.0 2.9 + - - -
156A GLU* 3.0 20.1 + - - +
183A TRP* 3.7 20.7 - + + -
314A CIT 3.4 39.9 + - - -
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Residues in contact with PRO 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A SER* 4.9 3.0 - - - -
151A GLY 3.6 7.4 - - - +
152A HIS* 1.3 97.2 - - + +
154A ASP* 1.3 61.4 - - - +
156A GLU* 4.0 5.2 - - + +
157A ALA* 2.9 31.4 + - - +
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Residues in contact with ASP 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A SER* 2.6 34.7 + - - +
152A HIS* 2.9 26.0 + - + +
153A PRO* 1.3 78.2 - - - +
155A ALA* 1.4 61.6 + - - +
157A ALA* 4.6 0.2 - - - -
158A ARG* 2.9 56.5 + - - +
183A TRP* 3.9 12.5 - - + -
314A CIT 4.9 4.9 + - - -
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Residues in contact with ALA 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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147A LYS* 4.2 7.8 - - + -
148A GLY* 3.7 25.8 - - - +
149A GLU 3.3 27.1 - - - +
152A HIS 3.0 4.5 + - - +
154A ASP* 1.4 77.8 - - - +
156A GLU* 1.3 64.6 + - - +
159A THR* 2.8 31.4 + - - -
183A TRP* 3.6 11.0 - - + -
210A ASN* 3.4 11.1 - - - +
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Residues in contact with GLU 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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147A LYS* 2.8 32.7 + - - -
150A PRO* 4.7 0.3 - - - +
151A GLY* 2.8 34.0 + - - +
152A HIS 3.0 18.9 + - - +
153A PRO* 4.0 5.8 - - + +
155A ALA* 1.3 76.0 - - - +
157A ALA* 1.3 58.3 + - - +
159A THR* 3.9 3.0 - - - -
160A THR* 3.0 37.8 + - - +
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Residues in contact with ALA 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A SER* 4.2 9.6 - - - +
113A LYS* 3.8 32.5 - - + +
153A PRO 2.9 19.4 + - - +
154A ASP 4.3 1.1 - - - +
156A GLU* 1.3 75.8 - - - +
158A ARG* 1.3 61.7 + - - +
160A THR* 4.7 0.2 - - - -
161A TYR* 2.9 43.1 + - + +
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Residues in contact with ARG 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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112A SER* 4.5 3.8 + - - +
115A SER* 2.9 32.1 + - - +
116A GLY* 4.1 13.3 - - - +
119A GLN* 4.7 4.1 - - - +
154A ASP* 2.9 46.1 + - - +
157A ALA* 1.3 77.1 - - - +
159A THR* 1.3 60.6 + - - +
162A VAL* 3.2 30.0 + - - +
183A TRP* 3.9 15.8 - - - -
210A ASN* 2.9 46.4 + - + +
211A ASN* 4.4 2.6 - - - +
235A VAL* 3.6 28.7 - - + +
236A ASP* 4.2 12.1 + - - -
256A ASN* 5.3 6.1 - - - +
295A TYR* 5.0 8.1 + - - -
314A CIT 5.6 2.0 + - - -
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Residues in contact with THR 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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145A LEU* 3.6 22.5 - - + +
147A LYS* 3.6 22.5 - - + +
155A ALA 2.8 19.4 + - - -
156A GLU* 3.9 2.2 - - - -
158A ARG* 1.3 75.1 - - - +
160A THR* 1.3 69.0 + - - +
162A VAL* 3.7 11.1 - - - +
163A ILE* 3.9 11.0 - - + +
178A LEU* 4.0 18.8 - - + -
210A ASN* 3.0 22.7 + - - +
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Residues in contact with THR 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 GLU* 3.0 21.7 + - - -
157A ALA* 4.7 0.2 - - - -
159A THR* 1.3 81.7 - - - +
161A TYR* 1.3 76.8 + - + +
163A ILE* 3.6 3.6 + - - +
164A LYS* 3.1 46.3 + - + +
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Residues in contact with TYR 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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113A LYS* 3.6 58.1 + - + +
116A GLY 3.8 4.0 - - - +
117A ILE* 4.1 23.3 - - + +
157A ALA* 2.9 26.5 + - + +
160A THR* 1.3 90.1 - - + +
162A VAL* 1.3 65.7 + - - +
163A ILE 3.2 1.3 - - - -
164A LYS* 3.8 33.6 - - + -
165A GLU* 2.9 26.6 + - - +
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Residues in contact with VAL 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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116A GLY 3.3 11.9 + - - +
119A GLN* 3.4 21.5 - - - +
120A GLY* 3.7 15.4 - - - +
123A ILE* 3.7 26.2 - - + -
145A LEU* 3.8 21.8 - - + -
158A ARG 3.2 21.1 + - - +
159A THR 3.7 9.2 - - - +
161A TYR* 1.3 77.2 - - - +
163A ILE* 1.3 67.3 + - + +
166A LEU* 3.1 28.3 + - + +
208A ILE* 4.0 10.8 - - + -
210A ASN* 5.6 0.4 - - - +
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Residues in contact with ILE 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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143A PHE* 3.4 42.0 - - + -
145A LEU* 4.7 2.2 - - + -
159A THR* 3.9 12.6 - - + +
160A THR* 3.6 6.6 + - - +
162A VAL* 1.3 81.0 - - + +
164A LYS* 1.3 67.2 + - + +
166A LEU* 3.3 10.8 + - + +
167A ASN* 3.0 40.9 + - - +
173A THR* 3.6 14.8 - - + +
175A GLN* 6.0 0.4 - - - +
178A LEU* 6.2 1.6 - - + -
208A ILE* 4.0 19.5 - - + -
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Residues in contact with LYS 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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160A THR* 3.1 42.0 + - + +
161A TYR* 3.8 32.8 - - + +
163A ILE* 1.3 77.2 - - + +
165A GLU* 1.3 58.7 - - - +
167A ASN* 3.3 6.6 + - - +
168A ASP* 2.8 50.4 + - - +
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Residues in contact with GLU 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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117A ILE* 3.4 43.1 - - + +
120A GLY* 4.3 2.7 - - - -
121A ASP* 2.4 39.9 - - - +
161A TYR 2.9 20.4 + - - +
162A VAL 3.9 2.7 - - - +
164A LYS* 1.3 74.7 - - - +
166A LEU* 1.3 65.7 + - - +
168A ASP* 3.2 13.0 + - - +
169A LYS* 2.9 40.2 + - + +
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Residues in contact with LEU 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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120A GLY* 3.4 23.3 - - - +
123A ILE* 3.9 24.2 - - + -
124A ALA* 3.8 14.6 - - + +
141A ILE* 4.2 8.7 - - + -
162A VAL 3.1 21.6 + - - +
163A ILE* 3.3 15.0 + - + +
165A GLU* 1.3 75.8 - - - +
167A ASN* 1.3 61.8 + - - +
169A LYS* 3.1 12.3 + - - +
170A GLY 3.4 0.3 + - - -
171A ILE* 3.0 44.3 + - + +
173A THR* 4.1 26.9 - - + -
208A ILE* 4.5 11.4 - - + -
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Residues in contact with ASN 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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163A ILE* 3.0 35.3 + - - +
164A LYS* 3.7 6.7 - - - +
166A LEU* 1.3 75.2 - - - +
168A ASP* 1.3 61.8 + - - +
170A GLY* 2.9 19.8 + - - -
171A ILE 3.0 20.2 - - - +
172A LYS* 4.0 3.0 - - - +
173A THR* 3.0 23.5 + - - +
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Residues in contact with ASP 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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164A LYS* 2.8 41.6 + - - +
165A GLU* 3.2 16.7 + - - +
167A ASN* 1.3 80.7 - - - +
169A LYS* 1.3 58.2 + - + +
170A GLY* 3.1 3.2 + - - -
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Residues in contact with LYS 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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120A GLY 5.1 0.2 - - - +
121A ASP* 3.2 31.9 + - - +
124A ALA* 3.9 26.7 - - + -
165A GLU* 2.9 29.8 + - + +
166A LEU* 3.1 7.1 + - - +
168A ASP* 1.3 76.0 - - + +
170A GLY* 1.3 61.1 + - - +
171A ILE* 3.4 7.4 + - + +
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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
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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