Contacts of the helix formed by residues 59 - 86 (chain C) in PDB entry 1TAD
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 LEU 59 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LYS* 3.9 8.7 - - - +
180A ILE* 3.9 22.0 - - + -
195A PHE* 3.6 44.6 - - + -
209A HIS 2.9 18.7 + - - +
210A CYS* 3.9 22.7 - - + -
58C SER* 1.3 70.7 - - - +
60C GLU* 1.3 79.2 + - - +
62C CYS* 3.1 4.7 + - - +
63C LEU* 3.0 29.4 + - + +
164C VAL* 3.8 26.9 - - + -
353C CAC 3.8 9.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LYS* 2.8 37.4 + - - +
195A PHE* 5.0 1.9 - - - -
209A HIS 4.7 1.2 - - - +
212A GLU* 4.0 20.1 - - - +
58C SER* 3.2 10.4 + - - +
59C LEU* 1.3 86.5 + - - +
61C GLU* 1.3 64.6 + - + +
63C LEU* 3.4 22.6 + - + +
64C GLU* 3.4 18.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LYS* 2.9 35.0 + - - -
56C GLY 3.7 0.9 - - - +
57C TYR* 3.3 12.9 - - + -
58C SER* 3.0 37.3 + - - +
60C GLU* 1.3 76.9 - - + +
62C CYS* 1.3 64.3 + - - +
64C GLU* 3.1 20.0 + - - +
65C PHE* 3.2 18.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 62 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C TYR* 3.8 15.5 - - - -
58C SER 3.0 11.4 + - - -
59C LEU 3.1 6.7 + - - +
61C GLU* 1.3 77.0 - - - +
63C LEU* 1.3 57.0 + - - +
65C PHE* 2.9 25.8 + - - +
164C VAL* 4.5 0.7 - - + -
165C PRO* 3.4 27.6 - - + +
170C VAL* 4.5 8.7 - - - -
353C CAC 2.2 62.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A GLU* 3.7 22.2 - - - +
195A PHE* 4.0 25.4 - - + -
59C LEU* 3.0 23.5 + - + +
60C GLU* 3.6 19.1 - - + +
61C GLU 3.3 0.4 - - - -
62C CYS* 1.3 75.7 - - - +
64C GLU* 1.3 64.3 + - - +
65C PHE 3.2 1.0 + - - -
66C ILE* 3.2 36.2 + - + +
67C ALA 4.7 0.5 + - - -
164C VAL* 4.0 31.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C GLU 3.5 14.3 - - - +
61C GLU* 3.1 15.4 + - - +
62C CYS 3.1 0.6 - - - -
63C LEU* 1.3 79.6 - - - +
65C PHE* 1.3 63.7 + - + +
66C ILE 3.4 0.4 + - - -
67C ALA* 4.3 8.6 + - - +
68C ILE* 4.0 14.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 65 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C LYS* 4.0 12.6 - - - -
57C TYR* 3.8 21.5 - + - -
61C GLU* 3.2 28.9 - - + -
62C CYS 2.9 11.8 + - - +
64C GLU* 1.3 81.8 - - + +
66C ILE* 1.3 52.4 + - - +
67C ALA 3.3 1.1 - - - -
68C ILE* 3.0 24.1 + - + +
69C ILE* 2.8 51.2 + - + +
165C PRO* 4.4 0.2 - - + -
170C VAL* 3.6 39.3 - - + -
173C SER* 3.5 27.1 - - - -
175C VAL* 6.2 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A GLU* 5.3 2.7 - - - +
62C CYS 3.8 0.4 + - - -
63C LEU* 3.2 31.1 + - + +
65C PHE* 1.3 76.0 - - - +
67C ALA* 1.3 54.2 + - - +
69C ILE* 3.2 6.2 + - - +
70C TYR* 2.8 70.2 + - + +
113C GLY 5.1 0.2 - - - +
163C TYR* 3.4 28.5 - - + +
165C PRO* 3.5 27.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C LEU 4.7 0.6 + - - -
64C GLU 4.3 7.5 + - - +
65C PHE 3.3 0.4 - - - -
66C ILE* 1.3 77.9 - - - +
68C ILE* 1.3 59.2 + - + +
70C TYR 3.4 0.3 + - - -
71C GLY* 2.9 24.9 + - - -
112C GLU 5.3 0.9 - - - +
113C GLY* 3.4 33.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C GLU* 4.0 15.3 - - + +
65C PHE* 3.0 32.4 + - + +
67C ALA* 1.3 78.6 - - + +
69C ILE* 1.3 57.3 + - - +
71C GLY* 3.3 1.8 + - - -
72C ASN* 2.9 41.6 + - - +
173C SER* 3.9 11.9 - - - -
174C ARG 3.8 10.1 - - - +
175C VAL* 3.7 34.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C PHE* 2.8 27.6 + - + +
66C ILE* 3.6 4.5 - - - +
68C ILE* 1.3 72.6 - - - +
70C TYR* 1.3 62.8 + - + +
72C ASN* 3.2 8.1 + - - +
73C THR* 2.9 37.0 + - - +
151C TYR* 3.7 36.6 - - + +
158C LEU* 4.3 10.5 - - + -
163C TYR* 3.4 27.8 - - + +
165C PRO* 3.7 19.3 - - + -
169C ASP* 3.7 22.7 - - + +
173C SER* 4.4 7.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 70 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C ILE* 2.8 40.0 + - + +
69C ILE* 1.3 77.9 - - + +
71C GLY* 1.3 61.7 + - - +
73C THR* 4.5 5.4 - - - -
74C LEU* 3.1 24.3 + - - +
113C GLY* 3.3 31.4 - - - +
114C THR* 4.0 7.8 - - - +
115C MET* 3.7 45.9 - - + +
155C LEU* 6.2 1.1 - - + -
158C LEU* 2.7 39.2 + - + -
159C VAL* 4.1 6.0 - - + -
160C THR 5.2 0.2 + - - -
163C TYR* 3.6 21.3 - + - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C ALA 2.9 17.2 + - - -
68C ILE* 3.7 1.6 - - - -
70C TYR* 1.3 75.4 - - - +
72C ASN* 1.3 65.5 + - - +
74C LEU* 3.2 6.3 + - - +
75C GLN* 2.9 33.1 + - - +
113C GLY* 4.5 8.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ILE* 2.9 22.9 + - - +
69C ILE* 3.2 4.6 + - - +
71C GLY* 1.3 75.3 - - - +
73C THR* 1.3 62.2 + - - +
75C GLN* 3.3 4.7 + - - +
76C SER* 2.9 29.3 + - - +
145C ASN* 4.1 15.4 + - + +
147C SER* 6.2 0.2 - - - -
151C TYR* 3.8 20.6 + - + -
173C SER* 3.4 16.6 - - - +
174C ARG* 3.0 51.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C ILE* 2.9 18.6 + - - +
70C TYR* 3.9 7.0 - - - -
72C ASN* 1.3 76.2 - - - +
74C LEU* 1.3 62.4 + - - +
76C SER* 3.4 6.4 + - - -
77C ILE* 3.3 23.9 + - - +
115C MET* 4.3 11.0 - - + -
123C ILE* 5.1 2.0 - - + -
151C TYR* 3.4 28.6 - - + +
152C LEU* 3.7 23.6 - - + +
155C LEU* 3.9 25.6 - - + -
158C LEU* 4.1 7.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 74 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C TYR 3.1 18.4 + - - +
71C GLY* 3.6 6.5 - - - +
73C THR* 1.3 77.4 - - - +
75C GLN* 1.3 75.0 + - - +
77C ILE* 3.3 9.9 - - + +
78C LEU* 3.1 46.8 + - + +
103C LEU* 4.6 6.5 - - + -
107C ALA* 4.5 13.5 - - + +
110C ILE* 4.2 21.3 - - + -
114C THR 5.5 0.9 - - - +
115C MET* 4.4 5.6 - - + +
119C MET* 4.1 27.6 - - + -
123C ILE* 4.6 2.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 75 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C GLY* 2.9 22.4 + - - +
72C ASN* 3.8 5.4 - - - +
74C LEU* 1.3 87.1 - - - +
76C SER* 1.3 58.0 + - - +
78C LEU* 3.5 22.5 + - - +
79C ALA* 3.0 29.3 + - - +
82C ARG* 4.3 11.0 + - - +
145C ASN* 4.3 12.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 76 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ASN* 2.9 19.0 + - - +
73C THR* 3.6 7.5 - - - -
74C LEU 3.2 0.2 - - - -
75C GLN* 1.3 76.3 - - - +
77C ILE* 1.3 64.1 + - - +
79C ALA* 3.1 4.7 + - - +
80C ILE* 3.0 27.3 + - - +
144C LEU* 3.4 8.2 - - - +
145C ASN* 3.3 25.6 + - - +
147C SER 4.9 0.2 - - - -
148C ALA* 3.5 30.3 + - - +
151C TYR* 5.6 0.7 - - - -
152C LEU* 4.1 6.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 77 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C THR 3.3 11.5 + - - +
74C LEU* 3.3 12.3 - - + +
76C SER* 1.3 77.9 - - - +
78C LEU* 1.3 57.2 + - - +
80C ILE* 3.2 20.0 + - + +
81C VAL* 2.7 51.9 + - + +
103C LEU* 4.0 14.8 - - + -
123C ILE* 3.8 45.1 - - + -
126C LEU* 4.2 22.7 - - + -
127C TRP* 4.7 5.4 - - + +
132C ILE* 4.5 13.2 - - + -
152C LEU* 4.1 10.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 78 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C LEU* 3.1 42.0 + - + +
75C GLN* 3.6 27.6 - - - +
77C ILE* 1.3 79.0 - - - +
79C ALA* 1.3 51.9 + - - +
81C VAL* 3.3 5.0 + - + +
82C ARG* 2.8 66.2 + - - +
103C LEU* 4.1 20.4 - - + -
104C MET* 3.9 19.0 - - - +
107C ALA* 4.1 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 79 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C GLN 3.0 14.7 + - - +
76C SER 3.4 8.7 - - - +
78C LEU* 1.3 74.1 - - - +
80C ILE* 1.3 58.8 + - - +
82C ARG* 3.4 13.0 + - - +
83C ALA* 2.9 29.6 + - - +
142C TYR* 4.0 7.3 - - + -
143C GLN 3.7 23.1 - - - +
144C LEU* 3.9 10.5 - - + -
145C ASN* 5.5 1.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 80 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C SER 3.0 15.4 + - - +
77C ILE* 3.6 11.2 - - + +
79C ALA* 1.3 71.7 - - - +
81C VAL* 1.3 67.8 + - - +
83C ALA* 3.2 4.3 + - - +
84C MET* 3.1 20.4 + - - +
127C TRP* 4.0 15.7 - - + -
132C ILE* 3.8 38.1 - - + +
135C CYS* 3.5 12.5 - - + -
136C PHE* 4.1 14.1 - - + +
142C TYR* 3.8 20.0 - - - +
144C LEU* 4.0 12.1 - - + -
152C LEU* 3.9 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 81 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C ILE* 2.7 40.7 + - + +
78C LEU* 3.6 6.3 - - - +
80C ILE* 1.3 72.2 - - - +
82C ARG* 1.3 64.4 + - - +
84C MET* 2.9 28.1 + - - +
85C THR* 3.9 3.5 + - - -
91C TYR* 3.8 14.8 + - - +
100C ALA* 3.9 15.0 - - + -
103C LEU* 4.5 7.2 - - + -
104C MET* 4.4 23.8 - - + -
126C LEU* 4.2 17.3 - - + -
132C ILE* 4.5 8.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 82 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C GLN* 4.3 10.7 + - - +
78C LEU* 2.8 58.8 + - - +
79C ALA* 3.5 10.7 - - - +
81C VAL* 1.3 73.0 - - - +
83C ALA* 1.3 63.3 + - - +
84C MET 3.1 1.2 + - - -
85C THR* 3.1 17.6 + - - -
86C THR* 3.2 17.3 + - - +
104C MET* 3.6 28.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 83 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C ALA 2.9 16.6 + - - +
80C ILE 3.4 0.7 - - - +
81C VAL 3.2 0.2 - - - -
82C ARG* 1.3 74.5 - - - +
84C MET* 1.3 58.2 + - - +
86C THR* 3.7 11.0 - - - -
87C LEU* 2.7 38.3 + - + +
135C CYS* 3.3 24.0 - - - -
142C TYR* 3.7 30.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 84 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C ILE 3.1 8.1 + - - +
81C VAL* 2.9 19.7 + - - +
83C ALA* 1.3 75.1 - - - +
85C THR* 1.3 59.9 + - - +
88C ASN* 2.9 6.6 + - - -
89C ILE* 2.7 58.8 + - - +
90C GLN 3.8 9.0 - - - +
91C TYR* 3.6 47.6 - - + +
131C GLY 3.7 23.3 - - - +
132C ILE* 3.8 11.7 - - + +
135C CYS* 3.6 27.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 85 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C VAL 3.9 3.8 + - - -
82C ARG* 3.1 9.4 + - - -
84C MET* 1.3 76.6 - - - +
86C THR* 1.3 60.1 + - - +
88C ASN* 2.7 26.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 86 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ARG* 3.2 17.4 + - - +
83C ALA* 3.7 11.8 - - + -
85C THR* 1.3 81.1 - - - +
87C LEU* 1.3 70.4 + - + +
88C ASN* 5.0 0.7 - - - +
141C GLU 5.9 2.7 - - - +
142C TYR* 5.9 5.6 - - + -
----------------------------------------------------------
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