Contacts of the helix formed by residues 146 - 161 (chain A) in PDB entry 2FK2
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 THR 146 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145A GLU* 1.3 86.8 + - - +
147A HIS* 1.3 65.9 + - - +
148A LEU* 3.5 17.1 + - - +
149A HIS* 3.2 15.9 + - - +
150A TRP* 3.2 18.7 + - - -
177A ASP* 4.2 17.0 - - - +
178A LYS* 4.1 26.2 - - + +
179A PHE* 4.3 0.4 - - - -
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Residues in contact with HIS 147 (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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101A CU1 2.2 31.3 - - - -
146A THR* 1.3 73.9 - - - +
148A LEU* 1.3 61.2 + - - +
150A TRP* 3.0 3.8 + - - +
151A HIS* 2.8 31.7 + - + -
168A TYR* 2.7 20.4 + + - -
170A MET* 4.0 21.9 - - + +
177A ASP 4.7 0.8 + - - +
179A PHE* 4.0 18.8 - - + -
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Residues in contact with LEU 148 (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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146A THR* 3.2 10.3 + - - +
147A HIS* 1.3 83.9 - - - +
149A HIS* 1.3 63.0 + - - +
151A HIS* 3.8 6.4 - - + +
152A THR* 2.9 40.2 + - - +
155A LYS* 5.6 4.9 - - - +
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Residues in contact with HIS 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A ARG* 4.3 19.1 + - - -
145A GLU* 3.4 45.9 - - + +
146A THR* 3.2 11.4 + - - +
148A LEU* 1.3 78.8 - - - +
150A TRP* 1.3 85.8 + + - +
152A THR* 3.3 8.2 + - - +
153A VAL* 3.0 51.5 + - + +
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Residues in contact with TRP 150 (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 GLN* 4.2 11.9 - - + -
139A GLU* 4.6 1.3 - - - -
140A ARG* 3.4 36.1 - - + -
143A VAL* 4.8 3.6 - - + -
145A GLU* 3.4 15.0 + - + +
146A THR 3.2 22.2 + - - -
147A HIS 3.0 6.7 + - - +
149A HIS* 1.3 96.5 - + - +
151A HIS* 1.3 61.1 + - - +
153A VAL* 3.3 15.2 + - + +
154A ALA* 2.9 29.5 + - - +
170A MET* 3.7 15.5 - - - -
179A PHE* 2.9 34.8 + - + -
180A ARG* 3.3 28.3 - - - -
181A GLY* 3.6 17.5 - - - -
182A VAL* 3.7 31.0 - - + +
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Residues in contact with HIS 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A CU1 2.0 32.8 - - - -
147A HIS* 2.8 22.3 + - + +
148A LEU* 3.8 9.6 - - + +
150A TRP* 1.3 71.8 - - - +
152A THR* 1.3 57.7 + - - +
154A ALA* 3.4 3.3 + - - +
155A LYS* 2.9 58.3 + - + +
165A LEU* 3.6 18.3 - - + +
168A TYR* 3.4 23.7 - + + -
170A MET* 4.6 1.2 - - - +
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Residues in contact with THR 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A LEU* 2.9 34.0 + - - +
149A HIS* 3.4 9.1 - - - +
151A HIS* 1.3 77.7 - - - +
153A VAL* 1.3 63.7 + - + +
155A LYS* 3.4 17.2 + - - +
156A GLU* 3.0 54.4 + - + +
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Residues in contact with VAL 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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138A GLN* 3.3 33.7 - - - +
149A HIS* 3.0 47.4 + - + +
150A TRP* 3.6 21.5 - - + +
152A THR* 1.3 77.1 - - + +
154A ALA* 1.3 62.1 + - - +
156A GLU* 3.4 4.2 + - - +
157A THR* 2.9 31.9 + - - +
182A VAL* 4.7 4.3 - - + -
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Residues in contact with ALA 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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150A TRP 2.9 17.6 + - - +
151A HIS* 3.8 5.6 - - - +
153A VAL* 1.3 75.7 - - - +
155A LYS* 1.3 65.9 + - - +
157A THR* 3.3 2.1 + - - -
158A CYS* 3.1 27.7 + - - -
165A LEU* 3.9 16.4 - - + -
168A TYR* 4.7 2.0 - - + -
182A VAL* 4.4 5.8 - - + -
184A PHE* 3.7 41.7 - - + -
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Residues in contact with LYS 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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148A LEU* 5.6 4.6 - - - +
151A HIS* 2.9 53.1 + - + +
152A THR* 3.7 21.9 + - - +
154A ALA* 1.3 78.6 - - - +
156A GLU* 1.3 62.7 + - + +
158A CYS* 3.2 3.5 + - - +
159A SER* 3.0 31.4 + - - +
165A LEU* 3.6 19.6 + - + +
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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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152A THR* 3.0 36.7 + - + +
153A VAL* 4.1 4.0 - - - +
155A LYS* 1.3 78.4 - - + +
157A THR* 1.3 65.6 + - - +
159A SER* 3.3 7.6 + - - -
160A GLU* 3.0 33.9 + - + +
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Residues in contact with THR 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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136A LEU* 4.2 3.1 - - + -
138A GLN* 3.1 27.0 + - - +
153A VAL* 2.9 23.9 + - - +
154A ALA 3.7 4.0 - - - -
156A GLU* 1.3 75.7 - - - +
158A CYS* 1.3 65.6 + - - +
160A GLU* 3.2 20.5 + - - +
161A LYS* 3.4 35.3 + - - +
184A PHE* 3.8 18.6 - - + -
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Residues in contact with CYS 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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154A ALA 3.1 18.7 + - - -
155A LYS 3.7 6.3 - - - +
157A THR* 1.3 76.7 - - - +
159A SER* 1.3 63.6 + - - +
161A LYS* 3.0 11.2 + - - -
163A THR* 2.7 34.3 + - - +
165A LEU* 3.6 31.9 - - - +
184A PHE* 3.9 7.4 - - - -
186A CYS* 2.0 50.5 - - - -
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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 LYS* 3.0 17.8 + - - +
156A GLU* 3.7 8.7 - - - -
157A THR 3.2 0.2 - - - -
158A CYS* 1.3 78.4 - - - +
160A GLU* 1.3 61.6 + - - +
162A SER* 3.2 13.7 + - - +
163A THR 3.7 10.8 + - - -
164A ASN* 5.3 2.1 + - - -
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Residues in contact with GLU 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 25.2 + - + +
157A THR* 3.7 12.4 + - - +
158A CYS 3.2 0.4 - - - -
159A SER* 1.3 77.1 - - - +
161A LYS* 1.3 60.7 + - + +
162A SER 3.3 1.2 + - - -
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Residues in contact with LYS 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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131A GLU* 4.9 1.9 - - - +
134A LYS* 5.9 3.8 - - + -
136A LEU* 3.7 35.2 - - + +
157A THR* 3.5 24.0 - - - +
158A CYS* 3.0 11.0 + - - +
160A GLU* 1.3 82.0 - - + +
162A SER* 1.3 69.0 + - - +
163A THR* 3.2 16.5 + - + +
186A CYS* 5.1 2.2 - - + -
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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
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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