Contacts of the helix formed by residues 151 - 176 (chain A) in PDB entry 3FGH
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 SER 151 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ASN 3.7 1.4 + - - -
150A LEU* 1.3 76.3 - - - +
152A ASP* 1.3 66.4 + - - +
153A SER* 3.4 7.8 + - - -
154A GLU* 3.1 28.7 + - - +
155A LYS* 3.0 22.0 + - - +
181A NA 3.5 12.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A CD 2.3 31.4 - - - -
150A LEU 4.9 0.5 - - - +
151A SER* 1.3 74.5 - - - +
153A SER* 1.3 57.4 + - - +
155A LYS* 3.5 19.2 + - - +
156A GLU* 2.9 29.5 + - - +
181A NA 3.7 5.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A SER* 3.4 4.5 + - - -
152A ASP* 1.3 77.7 - - - +
154A GLU* 1.3 62.1 + - - +
156A GLU* 3.5 10.0 + - - +
157A LEU* 3.0 23.0 + - - +
181A NA 3.0 22.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ARG* 3.1 28.8 + - - -
150A LEU* 3.7 21.2 - - + +
151A SER* 3.1 25.2 + - - +
153A SER* 1.3 75.8 + - - +
155A LYS* 1.3 65.7 + - - +
157A LEU* 3.2 12.4 + - + +
158A TYR* 3.1 39.4 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A TRP* 3.8 34.5 - - + +
148A LYS* 3.9 14.2 + - - +
150A LEU* 3.3 42.0 + - + +
151A SER 3.0 16.8 + - - +
152A ASP* 3.5 17.3 + - - +
154A GLU* 1.3 75.2 - - - +
156A GLU* 1.3 62.6 + - - +
158A TYR* 3.1 8.0 + - - +
159A ILE* 2.9 37.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ASP 2.9 18.4 + - - +
153A SER* 3.5 10.6 - - - +
155A LYS* 1.3 76.4 - - - +
157A LEU* 1.3 57.6 + - - +
159A ILE* 3.4 8.2 + - - +
160A GLN* 2.9 32.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A SER 3.0 14.3 + - - +
154A GLU* 3.2 14.6 + - + +
156A GLU* 1.3 74.9 - - - +
158A TYR* 1.3 66.7 + - + +
160A GLN* 3.3 8.5 + - + +
161A HIS* 3.0 60.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ALA* 3.6 17.7 - - + +
122A VAL* 4.5 9.4 - - + -
123A TYR* 2.6 60.9 - + + -
126A GLU* 2.7 33.6 + - - -
127A ARG* 2.9 9.9 + - - -
147A TRP* 4.1 15.3 - + + -
150A LEU* 4.0 13.0 - - + -
154A GLU* 3.1 40.8 + - + -
155A LYS 3.1 7.2 + - - +
157A LEU* 1.3 76.9 - - + +
159A ILE* 1.3 62.9 + - - +
161A HIS* 3.3 9.5 + - - +
162A ALA* 3.0 18.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ALA* 3.8 20.2 - - + -
147A TRP* 4.5 14.8 - - + -
155A LYS* 2.9 25.7 + - + +
156A GLU* 3.8 6.7 - - - +
158A TYR* 1.3 75.4 - - - +
160A GLN* 1.3 57.7 + - - +
162A ALA* 3.2 3.8 + - + +
163A LYS* 2.8 31.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A GLU* 2.9 22.7 + - + +
157A LEU* 3.3 9.4 + - + +
159A ILE* 1.3 75.8 - - - +
161A HIS* 1.3 69.8 + - + +
163A LYS* 3.3 25.4 + - - +
164A GLU* 3.0 55.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LEU* 3.0 50.8 + - + +
158A TYR* 3.6 12.5 - - + +
160A GLN* 1.3 79.6 - - + +
162A ALA* 1.3 62.1 + - - +
164A GLU* 3.3 23.4 + - - +
165A ASP* 3.2 26.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A PRO* 5.3 0.2 - - - +
117A ARG 4.2 8.7 - - - +
119A ALA* 3.6 31.9 - - + +
122A VAL* 5.6 2.7 - - + -
158A TYR 3.0 12.6 + - - +
159A ILE 3.7 6.3 - - - +
161A HIS* 1.3 78.5 - - - +
163A LYS* 1.3 57.3 + - - +
165A ASP* 3.1 11.5 + - - +
166A GLU* 2.9 38.1 + - - +
178A CL 3.9 9.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A ILE* 2.8 25.0 + - + +
160A GLN* 3.5 25.9 + - - +
162A ALA* 1.3 73.4 - - - +
164A GLU* 1.3 57.4 + - + +
166A GLU* 3.2 16.9 + - + +
167A THR* 2.9 41.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A GLN* 3.0 45.8 + - - +
161A HIS* 3.6 25.5 - - - +
162A ALA 3.2 0.2 - - - -
163A LYS* 1.3 75.6 - - + +
165A ASP* 1.3 65.9 + - - +
167A THR* 3.3 8.1 + - - -
168A ARG* 3.1 21.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 165 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A PRO* 3.6 24.2 - - + +
117A ARG 5.3 2.4 - - - +
122A VAL* 5.8 4.0 - - - +
161A HIS 3.2 11.3 + - - +
162A ALA* 3.1 13.5 + - - +
164A GLU* 1.3 79.3 - - - +
166A GLU* 1.3 57.9 + - - +
168A ARG* 2.9 34.9 + - - +
169A TYR* 3.0 27.2 + - - +
180A NA 2.3 32.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A CD 2.2 32.1 - - - -
115A ARG* 5.9 5.6 + - + +
116A PRO* 3.9 22.1 - - + +
117A ARG 4.7 2.0 - - - +
118A SER* 4.6 5.9 - - - -
162A ALA* 2.9 22.5 + - - +
163A LYS* 3.2 18.3 + - + +
165A ASP* 1.3 73.4 - - - +
167A THR* 1.3 59.7 + - - +
169A TYR* 3.2 5.2 + - + +
170A HIS* 2.8 50.4 + - + +
178A CL 3.7 6.2 - - - +
179A CL 3.5 11.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A LYS* 2.9 25.6 + - - +
164A GLU* 3.6 10.6 - - - -
165A ASP 3.3 0.2 - - - -
166A GLU* 1.3 76.6 - - - +
168A ARG* 1.3 62.0 + - - +
170A HIS* 3.2 15.3 + - + +
171A ASN* 3.0 35.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A PRO* 5.6 2.4 - - - +
164A GLU 3.1 13.5 + - - +
165A ASP* 2.9 43.7 + - - +
167A THR* 1.3 75.7 - - - +
169A TYR* 1.3 57.7 + - - +
171A ASN* 3.2 11.2 + - - +
172A GLU* 2.9 55.8 + - + +
180A NA 4.2 2.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A LYS* 5.4 4.9 - - - -
113A PRO* 3.6 30.6 + - + -
114A LYS 3.5 13.5 - - - +
115A ARG* 3.6 41.9 + - + +
116A PRO* 3.6 25.8 - - + -
165A ASP 3.0 8.4 + - - +
166A GLU* 3.2 8.3 + - + +
168A ARG* 1.3 77.9 - - - +
170A HIS* 1.3 78.8 + + - +
172A GLU* 3.2 10.5 + - - +
173A MET* 2.9 53.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A GLU* 2.8 40.6 + - + +
167A THR* 3.4 13.6 + - + +
169A TYR* 1.3 88.6 - + - +
171A ASN* 1.3 67.0 + - - +
173A MET* 3.3 9.1 + - - +
174A LYS* 3.1 38.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A THR* 3.0 32.6 + - - +
168A ARG* 3.5 9.7 - - - +
170A HIS* 1.3 77.3 - - - +
172A GLU* 1.3 56.8 + - + +
174A LYS* 3.1 20.4 + - - +
175A SER* 3.0 31.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A PRO* 3.9 26.1 - - + +
114A LYS 5.3 2.1 + - - +
168A ARG* 2.9 43.8 + - + +
169A TYR* 3.7 16.2 + - - +
171A ASN* 1.3 73.5 - - + +
173A MET* 1.3 59.5 + - - +
175A SER* 3.2 6.0 + - - +
176A TRP* 2.8 31.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 173 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A LYS* 5.3 15.5 - - + -
113A PRO* 4.3 9.2 - - + +
169A TYR* 2.9 61.4 + - + +
170A HIS* 3.7 8.7 - - - +
172A GLU* 1.3 77.5 - - - +
174A LYS* 1.3 63.5 + - + +
176A TRP* 3.3 28.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A HIS* 3.1 26.3 + - - +
171A ASN* 3.1 19.9 + - - +
173A MET* 1.3 79.3 - - + +
175A SER* 1.3 59.1 + - - +
176A TRP 4.8 1.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 175 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171A ASN* 3.0 16.5 + - - +
172A GLU* 3.9 6.3 - - - -
174A LYS* 1.3 78.5 - - - +
176A TRP* 1.3 63.5 - - - +
177A ALA* 3.5 5.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 176 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A GLY* 3.3 27.3 + - - +
112A LYS* 3.6 44.4 - - + -
113A PRO* 3.7 20.0 - - + -
172A GLU 2.8 18.5 + - - +
173A MET* 3.3 22.0 + - + +
174A LYS 4.8 1.0 - - - +
175A SER* 1.3 78.2 - - - +
177A ALA* 1.3 80.4 - - - +
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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