Contacts of the helix formed by residues 80 - 101 (chain B) in PDB entry 4HWL
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 TRP 80 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU* 5.6 4.9 - - + +
26A TYR* 4.4 30.3 - + + -
29A VAL* 3.9 36.4 - - + +
56B MET* 6.5 0.2 - - - -
65B GLY* 2.8 37.7 + - - +
66B LEU 3.8 5.4 + - - +
67B THR* 3.7 27.4 - - + -
78B ILE* 3.3 6.8 + - + +
79B TYR* 1.3 69.4 - - - +
81B ALA* 1.3 72.7 + - + +
82B ARG 3.0 2.9 - - - -
83B TYR* 3.0 28.9 + - - +
84B ALA* 3.7 14.7 + - + -
123B LEU* 4.0 18.9 - - + +
127B LEU* 4.8 7.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 81 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B MET* 3.9 20.3 - - - +
59B SER* 5.5 2.5 - - - -
60B MET* 3.6 31.6 - - + +
64B TYR 4.6 0.4 - - - +
65B GLY* 3.2 18.9 + - - +
79B TYR 3.2 1.0 - - - -
80B TRP* 1.3 87.3 - - + +
82B ARG* 1.3 61.7 + - - +
84B ALA* 3.1 17.2 + - - +
85B ASP* 3.2 11.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 82 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B LEU* 4.7 2.6 - - - +
57B TYR* 4.0 16.2 + - - -
60B MET* 4.1 27.5 - - + +
79B TYR* 3.8 34.1 - - - +
80B TRP 3.0 1.2 - - - -
81B ALA* 1.3 77.4 - - - +
83B TYR* 1.3 61.6 + - + +
85B ASP* 3.3 9.0 - - - +
86B TRP* 2.8 69.3 + - + +
194B GLU* 5.2 3.8 + - - -
201B LEU* 5.4 2.0 - - - +
204B GLU* 5.6 0.6 - - - +
205B THR* 3.6 41.2 + - - +
208B PHE* 3.6 34.6 - - - +
212B ASP* 4.3 3.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 83 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU* 3.8 4.3 - - + +
78B ILE* 5.2 1.3 - - + -
79B TYR 4.0 12.8 - - - -
80B TRP* 3.0 20.7 + - - +
82B ARG* 1.3 80.7 - - + +
84B ALA* 1.3 54.7 + - - +
86B TRP* 4.3 15.3 - + - +
87B LEU* 2.8 35.0 + - - +
119B ILE* 3.5 31.3 - - + +
122B GLY 3.6 4.0 - - - -
123B LEU* 3.6 44.6 - - + -
126B ALA* 3.5 24.3 - - + +
189B TRP* 2.9 31.5 + - - -
194B GLU* 4.5 4.4 + - + +
301B RET 3.9 18.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 84 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LEU* 4.5 17.2 - - + +
25A LEU* 3.7 19.1 - - + +
52B ILE* 4.9 0.9 - - - +
56B MET* 4.1 15.7 - - - -
80B TRP* 3.7 14.9 + - + +
81B ALA* 3.1 14.8 + - - +
83B TYR* 1.3 75.0 - - - +
85B ASP* 1.3 63.1 - - - +
87B LEU* 3.8 2.1 + - - +
88B PHE* 3.2 28.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 85 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ILE* 4.1 6.0 - - - +
53B ALA* 3.2 32.1 - - - +
56B MET* 3.7 26.8 - - + +
57B TYR* 4.5 9.2 - - - -
60B MET* 6.0 0.5 - - - +
81B ALA 3.2 5.0 + - - +
82B ARG* 3.3 11.4 - - - +
84B ALA* 1.3 76.0 - - - +
86B TRP* 1.4 72.4 + - - +
88B PHE* 3.2 6.4 + - - +
89B THR* 2.8 50.0 + - - +
212B ASP* 5.1 0.3 - - - +
216B LYS* 3.6 4.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 86 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ARG* 2.8 58.2 + - + +
83B TYR* 4.2 18.8 - + - +
85B ASP* 1.4 82.9 - - - +
87B LEU* 1.3 65.1 + - - +
88B PHE 3.1 0.7 + - - -
89B THR* 3.4 4.9 - - - -
90B THR* 2.7 33.5 + - + -
119B ILE* 3.7 16.1 - - + +
185B TYR* 3.6 21.5 - + - -
208B PHE* 3.9 25.1 - + - -
212B ASP* 3.2 27.3 + - - -
301B RET 3.5 63.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 87 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A GLY* 4.1 13.9 - - - +
25A LEU* 3.8 31.2 - - + -
54A PHE* 4.8 17.7 - - + -
83B TYR 2.8 23.5 + - - +
84B ALA 3.8 7.9 - - - +
85B ASP 3.2 0.6 + - - -
86B TRP* 1.3 71.3 - - - +
88B PHE* 1.3 84.1 + - + +
91B PRO* 3.1 20.3 - - - +
115B ASP* 4.7 1.5 - - - +
116B GLY* 4.6 17.9 - - - +
119B ILE* 3.9 22.6 - - + +
120B GLY* 5.7 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 88 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A THR* 4.6 6.5 - - + -
18A ALA* 3.7 29.6 - - + -
21A GLY* 4.4 1.3 - - - -
22A LEU* 3.4 45.5 - - + -
54A PHE* 4.9 7.0 - + - -
52B ILE* 4.1 25.8 - - + -
84B ALA 3.2 26.2 - - - -
85B ASP 3.2 3.8 + - - +
86B TRP 3.2 0.2 - - - -
87B LEU* 1.3 101.4 - - + +
89B THR* 1.3 68.2 + - - +
90B THR 3.4 0.4 - - - -
91B PRO* 3.3 6.2 - - + +
92B LEU* 3.1 31.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 89 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B VAL* 3.4 34.8 - - - +
52B ILE* 3.8 17.0 - - + -
85B ASP* 2.8 38.8 + - - +
86B TRP* 3.4 7.6 - - - -
88B PHE* 1.3 77.2 - - - +
90B THR* 1.3 65.2 + - - +
92B LEU* 3.4 7.1 + - - +
93B LEU* 3.1 27.8 + - - +
216B LYS* 3.4 22.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 90 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86B TRP* 2.7 30.2 + - + +
89B THR* 1.3 76.0 + - - +
91B PRO* 1.4 62.3 - - - +
93B LEU* 3.2 6.4 + - - +
94B LEU* 3.1 24.1 + - - +
115B ASP* 2.6 34.6 + - - -
118B MET* 4.5 2.9 - - + -
119B ILE* 4.0 2.4 - - - +
182B TRP* 3.7 13.7 - - + -
301B RET 3.5 49.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 91 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B LEU 3.1 26.9 - - - +
88B PHE* 3.3 14.6 - - - +
90B THR* 1.4 96.9 - - - +
92B LEU* 1.3 57.8 + - + +
94B LEU* 3.2 9.3 + - + +
95B LEU* 2.8 28.5 + - - +
112B VAL* 4.1 34.5 - - + +
115B ASP* 3.4 14.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 92 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B ILE* 3.5 26.1 - - + +
48B LEU* 3.8 34.1 - - + -
49B VAL* 3.7 23.1 - - + -
52B ILE* 4.1 8.5 - - + -
88B PHE* 3.1 27.2 + - + +
89B THR* 3.7 4.3 - - - +
91B PRO* 1.3 76.0 - - + +
93B LEU* 1.3 62.8 + - - +
95B LEU* 3.1 18.4 + - + +
96B ASP* 3.0 20.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 93 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B THR* 6.0 1.6 - - + -
49B VAL* 4.3 18.4 - - + -
89B THR 3.1 22.3 + - - +
90B THR* 3.2 7.4 + - - +
92B LEU* 1.3 74.4 - - - +
94B LEU* 1.3 64.5 + - - +
95B LEU 3.3 0.3 + - - -
96B ASP* 3.3 10.5 + - - +
97B LEU* 3.2 25.6 + - + +
182B TRP* 4.4 11.2 - - + +
215B ALA 3.7 20.2 - - - +
216B LYS* 4.3 13.2 - - + +
219B PHE* 3.5 41.8 - - + -
301B RET 3.8 26.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 94 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B THR 3.1 14.0 + - - +
91B PRO* 3.2 8.9 + - + +
93B LEU* 1.3 75.9 - - - +
95B LEU* 1.3 56.7 + - - +
97B LEU* 3.2 10.9 + - + +
98B ALA* 2.8 30.0 + - - +
111B LEU* 3.9 35.4 - - + +
112B VAL* 5.6 3.1 - - + -
115B ASP* 3.3 24.5 - - + +
148B ILE* 3.9 23.8 - - + -
152B LEU* 3.8 35.7 - - + -
156B PHE* 4.5 2.1 - - - -
182B TRP* 3.9 13.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 95 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 5.9 6.7 - - + -
45B ILE* 3.8 21.8 - - + -
91B PRO 2.8 13.7 + - - +
92B LEU* 3.1 23.1 + - + +
94B LEU* 1.3 73.6 - - - +
96B ASP* 1.3 60.5 + - - +
98B ALA* 3.2 3.0 + - - -
99B LEU* 2.9 55.0 + - + +
108B ILE* 4.7 26.0 - - + -
112B VAL* 6.1 2.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 96 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B PHE* 3.5 28.7 - - + +
45B ILE* 3.6 26.4 - - - +
46B THR* 2.6 32.8 + - - +
49B VAL* 5.5 0.3 - - - +
92B LEU 3.0 8.9 + - - +
93B LEU* 3.3 14.1 - - - +
95B LEU* 1.3 76.4 - - - +
97B LEU* 1.3 63.3 + - - +
99B LEU* 4.9 0.9 - - - -
100B LEU* 3.0 25.5 + - - +
174B LEU* 6.3 0.4 - - + -
219B PHE* 3.7 25.5 - - + -
223B LEU* 4.9 6.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 97 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B LEU* 3.2 14.5 + - + +
94B LEU* 3.2 14.4 + - + +
96B ASP* 1.3 78.3 - - - +
98B ALA* 1.3 62.4 + - - +
100B LEU* 3.3 8.7 + - + +
101B VAL* 3.3 27.5 + - - +
152B LEU* 3.8 32.5 - - + -
156B PHE* 3.8 13.9 - - + -
171B PHE* 4.3 17.8 - - + -
174B LEU* 3.8 35.4 - - + +
175B ARG* 5.3 2.0 - - - -
178B THR* 4.1 17.0 - - + +
182B TRP* 6.4 0.2 - - + -
219B PHE* 3.8 13.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 98 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B LEU 2.8 17.7 + - - +
95B LEU* 3.2 7.4 + - - +
97B LEU* 1.3 78.3 - - - +
99B LEU* 1.3 56.6 + - - +
101B VAL 3.4 1.4 + - - -
102B ASP 2.9 7.4 + - - -
103B ALA* 2.8 28.8 + - + -
108B ILE* 3.7 33.9 - - + -
111B LEU* 5.5 1.6 - - + -
156B PHE* 3.5 22.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 99 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B ASP* 6.1 0.2 - - - +
41B LYS* 4.6 21.3 - - + -
42B PHE* 3.8 25.3 - - + -
45B ILE* 3.4 33.0 - - + -
95B LEU* 2.9 36.1 + - + +
98B ALA* 1.3 70.1 - - - +
100B LEU* 1.3 66.2 + - - +
101B VAL 3.4 0.2 + - - -
102B ASP* 3.4 10.9 + - - +
108B ILE* 5.4 6.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 100 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B PHE* 3.7 12.0 - - + -
96B ASP 3.0 15.7 + - - +
97B LEU* 3.3 13.0 + - + +
99B LEU* 1.3 78.8 - - - +
101B VAL* 1.3 57.4 + - + +
102B ASP* 3.3 1.0 + - - +
163B MET* 4.5 4.0 - - - +
167B VAL* 3.7 24.0 - - + +
170B THR* 4.2 3.1 - - + -
171B PHE* 3.8 43.5 - - + +
174B LEU* 3.9 21.5 - - + -
223B LEU* 4.3 15.0 - - + -
228B ALA* 4.0 35.9 - - + +
229B ILE* 4.9 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 101 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B LEU 3.5 15.5 - - - +
98B ALA 3.6 7.0 - - - +
100B LEU* 1.3 75.0 - - - +
102B ASP* 1.3 54.6 + - - +
103B ALA* 4.0 9.0 - - + +
156B PHE* 3.6 34.3 - - + +
159B LYS* 2.6 45.0 - - + +
160B ALA* 3.8 23.1 - - + +
163B MET* 4.0 10.0 - - - +
167B VAL* 5.2 2.0 - - + -
171B PHE* 3.8 33.9 - - + -
----------------------------------------------------------
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