Contacts of the helix formed by residues 144 - 160 (chain A) in PDB entry 6H25
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 ASN 144 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A ARG* 4.2 1.6 - - - +
50A LEU* 4.5 5.6 - - + +
53A THR* 4.5 5.5 - - - +
143A GLY* 1.3 69.1 - - - -
145A ILE* 1.3 63.1 + - - +
146A ILE* 4.2 5.4 - - - +
147A ASP* 3.2 34.3 - - + +
148A ALA* 3.6 19.8 + - - +
195A SER* 3.4 21.6 + - - +
208A ASP* 2.9 39.7 + - - +
209A PRO* 3.3 12.8 + - - +
214A GLU* 3.5 17.6 + - - -
220A LEU* 4.5 8.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A THR* 5.7 2.2 - - + -
55A VAL* 5.3 2.0 - - + -
80A LEU* 4.9 6.1 - - + -
82A LEU* 4.9 1.3 - - + -
90A PHE* 5.8 0.2 - - + -
98A LEU* 4.7 14.1 - - + -
102A LEU* 3.7 34.3 - - + -
138A LEU* 3.7 46.9 - - + -
141A HIS* 3.5 33.0 - - + +
143A GLY 3.2 4.4 + - - +
144A ASN* 1.3 73.7 - - - +
146A ILE* 1.3 63.2 + - + +
148A ALA* 4.9 2.5 - - - -
149A ALA* 2.9 40.5 + - + +
214A GLU* 5.2 4.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A LEU* 6.3 0.2 - - + -
101A LYS* 4.2 15.9 - - - +
102A LEU* 3.6 28.0 - - + -
105A LEU* 3.7 31.0 - - + -
144A ASN* 3.2 9.1 - - - +
145A ILE* 1.3 85.5 - - + +
147A ASP* 1.3 58.5 + - - +
149A ALA* 3.7 3.5 - - - +
150A SER* 2.9 29.5 + - - -
193A CYS* 3.7 23.1 - - + -
195A SER* 4.0 15.5 - - - +
214A GLU* 5.7 1.6 - - - +
220A LEU* 4.7 11.2 - - + -
222A VAL* 4.0 11.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A TYR* 3.4 28.5 + - + +
50A LEU* 3.8 17.9 - - + -
144A ASN* 3.2 21.2 + - + +
145A ILE 3.4 0.2 - - - -
146A ILE* 1.3 75.4 - - - +
148A ALA* 1.3 58.3 + - - +
150A SER* 3.3 4.3 + - - -
151A ILE* 3.0 36.0 + - + +
193A CYS* 2.9 33.2 - - - +
194A VAL 3.5 0.2 + - - -
195A SER* 3.2 28.7 + - - +
208A ASP* 4.5 0.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A VAL* 4.4 7.3 - - + +
50A LEU* 3.5 26.3 - - + +
53A THR* 4.5 7.4 - - + +
55A VAL* 3.7 25.8 - - + +
144A ASN 3.6 15.4 + - - +
145A ILE* 4.4 1.1 - - - +
146A ILE 3.4 0.2 - - - -
147A ASP* 1.3 78.2 - - - +
149A ALA* 1.3 57.9 + - - +
151A ILE* 3.8 6.1 - - - +
152A ALA* 2.9 30.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A VAL* 4.4 9.1 - - + +
80A LEU* 4.5 20.4 - - + -
106A MET* 5.3 6.3 - - + -
136A LEU* 3.4 29.0 - - + +
145A ILE* 2.9 23.8 + - + +
146A ILE* 3.7 4.9 - - - +
148A ALA* 1.3 77.8 - - - +
150A SER* 1.3 57.6 + - - +
152A ALA* 3.4 0.3 + - - +
153A ALA* 2.9 26.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A MET* 6.3 1.8 - - - -
110A LEU* 5.3 9.2 - - - +
146A ILE 2.9 17.2 + - - -
147A ASP 3.8 3.4 - - - -
149A ALA* 1.3 73.9 - - - +
151A ILE* 1.3 64.3 + - - +
153A ALA* 3.4 4.6 + - - +
154A ILE* 3.0 29.0 + - - +
191A PRO 3.9 4.2 + - - -
192A ILE* 3.5 13.1 - - - -
193A CYS* 3.4 40.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A TYR* 6.3 0.9 - - + -
35A ILE* 5.0 14.4 - - + -
37A ILE* 4.8 9.6 - - + -
48A VAL* 3.7 26.9 - - + -
50A LEU* 4.3 19.3 - - + -
147A ASP* 3.0 23.3 + - + +
148A ALA* 3.8 4.5 - - - +
150A SER* 1.3 76.6 - - - +
152A ALA* 1.3 58.2 + - - +
154A ILE* 3.4 2.4 + - - +
155A VAL* 3.0 39.4 + - + +
192A ILE* 3.7 25.4 - - + -
193A CYS 5.9 0.4 - - - +
261A ILE* 4.3 22.2 - - + -
265A ILE* 4.9 6.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A CYS* 3.3 12.2 - - - -
48A VAL* 3.7 21.1 - - + +
55A VAL* 3.7 25.8 - - + +
57A GLY* 4.9 0.4 - - - -
136A LEU* 4.1 10.3 - - + -
148A ALA 2.9 18.3 + - - +
149A ALA 3.8 2.7 - - - +
151A ILE* 1.3 76.9 - - - +
153A ALA* 1.3 58.2 + - - +
155A VAL* 4.6 0.2 - - - -
156A ALA* 2.9 31.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A MET* 4.0 18.6 - - + -
110A LEU* 3.7 26.5 - - + -
134A VAL* 5.3 3.1 - - + -
136A LEU* 4.1 9.3 - - + +
149A ALA 2.9 18.1 + - - +
150A SER* 3.9 1.8 - - - +
152A ALA* 1.3 78.7 - - - +
154A ILE* 1.3 57.8 + - - +
156A ALA* 3.4 3.0 + - - -
157A LEU* 2.9 40.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 3.7 25.6 - - + -
115A CYS* 5.1 6.1 - - + -
116A ILE* 6.0 2.0 - - + -
150A SER 3.0 17.9 + - - +
151A ILE* 4.0 4.3 - - - +
153A ALA* 1.3 78.8 - - - +
155A VAL* 1.3 56.7 + - - +
157A LEU* 3.3 8.8 + - + +
158A CYS* 2.9 34.5 + - - -
189A HIS 5.2 0.9 - - - +
190A MET* 3.8 31.4 - - + -
191A PRO* 3.3 37.5 - - + +
192A ILE* 5.4 2.7 - - + -
265A ILE* 4.4 16.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ILE* 4.0 28.7 - - + -
39A PHE* 3.8 30.7 - - + -
46A CYS* 3.9 16.6 - - + -
48A VAL* 5.0 1.8 - - + -
151A ILE* 3.0 24.0 + - + +
152A ALA* 4.0 3.6 - - - +
154A ILE* 1.3 74.8 - - - +
156A ALA* 1.3 58.4 + - - +
158A CYS* 3.2 7.6 + - - +
159A HIS* 2.9 28.4 + - - +
265A ILE* 4.0 28.0 - - + -
268A ALA* 5.9 0.7 - - + -
269A LEU* 5.0 2.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A GLY* 4.1 13.1 - - - +
46A CYS* 3.7 16.1 - - - -
57A GLY* 4.5 7.9 - - - -
58A GLN 4.7 0.2 - - - +
59A VAL* 3.5 22.3 - - + +
134A VAL* 6.1 0.7 - - + -
136A LEU* 5.6 1.1 - - + -
152A ALA 2.9 19.9 + - - +
153A ALA* 3.9 4.7 - - - +
155A VAL* 1.3 79.4 - - - +
157A LEU* 1.3 61.2 + - + +
159A HIS* 4.1 3.5 - - - +
160A PHE* 3.2 26.9 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
59A VAL* 4.2 5.6 - - + -
76A LEU* 5.7 2.7 - - + -
78A PHE* 5.7 4.9 - - + -
110A LEU* 6.1 3.1 - - + -
115A CYS* 5.8 2.0 - - - -
116A ILE* 4.0 41.3 - - + -
132A ILE* 4.9 10.8 - - + -
134A VAL* 3.7 30.3 - - + -
153A ALA* 2.9 29.0 + - + +
154A ILE* 3.3 10.5 + - + +
156A ALA* 1.3 76.8 - - + +
158A CYS* 1.3 64.8 + - - +
160A PHE* 3.9 11.9 + - + +
185A LEU* 4.4 28.1 + - + +
187A ILE* 3.7 10.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ILE* 2.9 35.9 + - - +
155A VAL* 3.2 6.5 + - - +
157A LEU* 1.3 79.7 - - - +
159A HIS* 1.3 59.1 + - - +
160A PHE 3.6 3.8 + - - +
184A PRO* 5.4 6.2 - - - +
185A LEU 5.6 0.7 + - - -
187A ILE* 3.7 24.5 - - + +
190A MET* 4.0 24.9 - - - -
265A ILE* 4.9 3.6 - - - -
269A LEU* 3.7 30.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A PHE* 3.4 32.1 - + + +
42A ASP 4.3 1.0 + - - -
43A TYR* 4.0 10.0 - + - -
44A GLY* 3.2 31.5 + - - +
45A CYS 4.4 3.4 - - - -
46A CYS* 6.1 0.4 - - + -
155A VAL 2.9 16.5 + - - +
156A ALA* 4.4 2.9 - - - +
157A LEU 3.3 0.2 - - - -
158A CYS* 1.3 77.1 - - - +
160A PHE* 1.3 64.6 + - - +
161A ARG* 3.6 13.6 + - - +
269A LEU* 4.6 8.1 - - + +
272A ASP* 3.1 26.5 + - - +
276A ARG* 3.2 36.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A TYR* 4.5 6.7 - - + -
44A GLY* 4.1 13.5 - - - +
59A VAL* 3.5 45.5 - - + -
60A SER* 4.7 1.6 - - - -
61A CYS* 3.6 31.6 - - + -
132A ILE* 5.3 1.1 - - + -
156A ALA 3.2 18.8 + - - +
157A LEU* 4.3 6.6 - - + +
158A CYS 3.4 5.5 - - - +
159A HIS* 1.3 80.2 - - - +
161A ARG* 1.3 89.3 + - - +
162A ARG* 3.9 15.5 - - + -
163A PRO* 5.4 1.8 - - + -
184A PRO* 4.1 1.4 - - - +
185A LEU* 3.9 41.5 + - + +
----------------------------------------------------------
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