Contacts of the helix formed by residues 115 - 142 (chain C) in PDB entry 1P27
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 ASP 115 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C GLU* 4.2 5.4 - - - +
73C ASP 3.8 7.1 + - - +
76C LEU* 4.1 16.9 + - + +
77C TRP* 3.0 34.7 + - + +
113C SER* 3.3 5.8 + - - -
114C LYS* 1.3 82.2 - - - +
116C PRO* 1.3 68.3 - - - +
117C GLU* 3.8 5.4 + - - +
118C GLY* 3.1 23.7 + - - -
119C LEU* 3.0 18.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 116 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C VAL* 3.5 23.7 - - + +
111C ASN* 4.1 24.0 - - + +
113C SER* 3.4 12.5 - - - +
114C LYS 3.7 5.2 - - - +
115C ASP* 1.3 88.0 - - - +
117C GLU* 1.3 70.2 + - - +
120C ARG* 3.0 33.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 117 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C GLU* 4.8 3.4 - - - +
115C ASP* 3.2 5.1 - - - +
116C PRO* 1.3 92.0 - - - +
118C GLY* 1.3 64.7 + - - +
120C ARG* 3.5 11.5 + - - +
121C VAL* 3.3 27.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 118 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C ILE* 5.0 0.3 - - - +
72C GLU* 3.3 31.9 + - - +
77C TRP* 3.7 15.2 - - - -
115C ASP* 3.1 18.7 + - - -
117C GLU* 1.3 78.9 - - - +
119C LEU* 1.3 60.1 + - - +
121C VAL* 3.3 6.2 + - - +
122C PHE* 3.1 16.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 119 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C TRP* 3.5 49.5 - - + +
78C PRO* 3.8 19.7 - - + -
101C THR* 4.5 7.2 - - + -
104C ILE* 4.4 19.1 - - + -
110C VAL* 3.9 18.0 - - + +
113C SER* 3.4 31.4 - - - +
115C ASP 3.0 12.7 + - - +
118C GLY* 1.3 72.4 - - - +
120C ARG* 1.3 60.1 + - - +
122C PHE* 3.5 14.3 - - + +
123C TYR* 2.8 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 120 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C LEU* 4.0 19.9 - - + +
110C VAL* 3.8 11.5 - - + +
111C ASN* 3.4 28.1 + - - +
116C PRO 3.0 21.0 + - - +
117C GLU* 3.5 11.4 - - - +
119C LEU* 1.3 73.6 - - - +
121C VAL* 1.3 65.0 + - + +
123C TYR* 3.3 6.0 + - - +
124C TYR* 3.0 70.5 + - + -
109D ARG* 5.7 2.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 121 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C SER* 3.1 33.3 - - - +
68C GLU* 4.4 2.7 - - + +
69C ILE* 4.0 23.8 - - + +
72C GLU* 4.1 17.5 - - + +
117C GLU 3.3 15.8 + - - +
118C GLY 3.3 7.8 + - - +
120C ARG* 1.3 76.7 - - + +
122C PHE* 1.3 62.7 + - - +
124C TYR* 4.0 6.0 - - - +
125C LEU* 3.0 23.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 122 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C TYR* 4.6 2.5 - + - -
69C ILE* 4.1 11.4 - - + +
77C TRP* 3.6 35.9 - + + -
86C GLN* 3.6 45.1 - - + -
88C LEU* 3.9 37.2 - - + -
99C PHE* 4.4 7.0 - + + -
101C THR* 4.3 12.3 - - - -
104C ILE* 5.2 5.6 - - + -
118C GLY 3.1 7.2 + - - +
119C LEU* 3.5 22.2 - - + +
120C ARG 3.2 0.2 - - - -
121C VAL* 1.3 78.3 - - - +
123C TYR* 1.3 60.3 + - - +
125C LEU* 3.4 2.4 + - + +
126C VAL* 2.9 48.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 123 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C ILE* 4.2 10.5 - - + -
105C GLY 3.1 27.1 - - - -
106C SER* 3.1 27.9 + - - -
107C LEU* 3.5 26.0 - - + -
110C VAL* 4.3 11.2 - - + -
119C LEU 2.8 21.2 + - - +
120C ARG* 3.5 4.9 - - - +
122C PHE* 1.3 79.1 - - + +
124C TYR* 1.3 72.0 + + - +
126C VAL* 3.6 4.0 + - - +
127C GLN* 2.6 58.6 + - + +
108D ARG* 3.2 25.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 124 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C LEU* 3.6 18.3 - - + +
120C ARG* 3.0 70.6 + - + +
121C VAL* 4.1 5.2 - - - +
123C TYR* 1.3 83.7 - + - +
125C LEU* 1.3 65.5 + - - +
127C GLN* 3.3 5.8 + - - +
128C ASP* 3.0 33.7 + - - +
108D ARG* 3.8 28.0 - - + +
109D ARG* 3.6 61.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 125 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE* 3.8 29.4 - - + +
64C ILE* 4.3 6.7 - - + -
67C SER* 4.0 21.0 - - - +
69C ILE* 3.8 39.5 - - + -
88C LEU* 4.2 17.7 - - + -
90C ILE* 4.5 4.9 - - + -
121C VAL 3.0 18.8 + - - +
122C PHE 3.9 2.5 - - - +
124C TYR* 1.3 76.8 - - - +
126C VAL* 1.3 57.5 + - + +
128C ASP* 3.2 7.5 + - - +
129C LEU* 2.8 53.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 126 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C TYR* 3.5 50.7 - - + +
86C GLN* 4.1 5.2 - - - +
88C LEU* 4.9 6.7 - - + -
122C PHE* 2.9 45.3 + - + +
123C TYR* 3.9 6.1 - - + +
125C LEU* 1.3 74.9 - - + +
127C GLN* 1.3 57.9 + - + +
129C LEU* 3.2 8.9 + - + +
130C LYS* 2.9 44.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 127 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C TYR* 2.6 55.1 + - + +
124C TYR 3.6 4.9 - - - +
126C VAL* 1.3 75.9 - - + +
128C ASP* 1.3 56.6 + - - +
130C LYS* 3.4 17.5 + - - +
131C CYS* 3.1 34.5 + - - -
108D ARG* 2.7 55.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 128 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE* 4.3 15.2 - - + +
124C TYR* 3.0 25.2 + - - +
125C LEU* 3.6 9.5 - - - +
127C GLN* 1.3 71.5 - - - +
129C LEU* 1.3 66.1 + - - +
131C CYS* 3.4 8.2 + - - +
132C LEU* 3.3 21.0 + - - +
106D LEU 4.1 3.6 - - - +
107D ASP* 3.9 7.4 - - - +
108D ARG* 3.2 29.6 + - - +
114D LYS* 3.0 39.8 + - + +
116D TYR* 4.4 2.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 129 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C LEU* 3.9 33.0 - - + -
9C TYR* 5.2 2.5 - - + -
24C PHE* 3.9 19.1 - - + -
60C LEU* 3.6 29.8 - - + -
63C ILE* 4.7 8.1 - - + -
64C ILE* 4.8 2.7 - - + -
88C LEU* 4.3 14.6 - - + -
125C LEU* 2.8 47.8 + - + +
126C VAL* 3.7 9.0 - - + +
128C ASP* 1.3 74.2 - - - +
130C LYS* 1.3 64.9 + - - +
132C LEU* 3.3 6.8 + - - +
133C VAL* 3.0 27.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 130 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C TYR* 4.5 9.8 + - + -
11C VAL* 5.6 3.0 - - + +
22C LEU* 4.1 21.1 - - + -
24C PHE* 4.2 21.8 - - + -
126C VAL* 2.9 43.5 + - + +
127C GLN* 3.8 15.3 - - - +
129C LEU* 1.3 74.7 - - - +
131C CYS* 1.3 56.6 + - - +
133C VAL* 3.2 1.9 + - - +
134C PHE* 2.9 57.0 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 131 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C GLN* 3.1 20.2 + - - +
128C ASP* 3.7 11.0 - - - +
129C LEU 3.3 0.4 - - - -
130C LYS* 1.3 75.5 - - - +
132C LEU* 1.3 61.5 + - - +
134C PHE* 3.7 7.5 + - - +
135C SER* 3.1 28.4 + - - -
105D ASN* 3.4 21.6 + - + +
106D LEU 5.0 11.4 - - - +
108D ARG* 6.4 1.6 - - - -
116D TYR* 4.2 3.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 132 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C PHE* 4.0 11.4 - - + -
56C VAL* 4.6 7.4 - - + +
59C GLU* 6.0 1.3 - - + -
60C LEU* 4.0 30.5 - - + -
63C ILE* 5.0 8.1 - - + -
128C ASP 3.3 8.2 + - - +
129C LEU* 3.6 9.0 - - - +
131C CYS* 1.3 77.7 - - - +
133C VAL* 1.3 63.6 + - - +
135C SER* 3.2 3.5 + - - -
136C LEU* 3.0 51.8 + - + +
76D PHE* 4.1 20.0 - - + -
105D ASN* 4.5 0.9 - - - +
116D TYR* 3.4 38.9 + - + +
118D LEU* 5.2 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 133 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C PHE* 3.6 44.6 - - + -
26C PHE* 3.8 23.3 - - + -
32C LEU* 4.7 4.9 - - + -
34C TYR* 3.8 32.3 - - + -
129C LEU* 3.0 19.7 + - - +
130C LYS* 3.8 3.1 - - - +
132C LEU* 1.3 77.2 - - + +
134C PHE* 1.3 59.6 + - + +
136C LEU* 3.3 7.2 + - - +
137C ILE* 3.0 34.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 134 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C LEU* 3.7 33.9 - - + -
24C PHE* 5.8 0.4 - + - -
34C TYR* 3.9 17.9 - + - -
130C LYS* 2.9 44.6 + - + +
131C CYS* 4.0 6.5 - - - +
133C VAL* 1.3 81.7 - - + +
135C SER* 1.3 55.5 + - - +
137C ILE* 4.9 0.4 - - - -
138C GLY* 2.9 28.2 + - - -
145C PRO* 3.6 33.8 - - + +
103D HIS* 5.5 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 135 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C CYS 3.1 13.6 + - - -
132C LEU* 3.6 4.7 - - - -
134C PHE* 1.3 72.8 - - - +
136C LEU* 1.3 66.2 + - - +
139C LEU* 3.1 31.4 + - - +
103D HIS* 3.0 35.6 - - - -
105D ASN* 2.9 28.3 + - - -
118D LEU* 4.4 12.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 136 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C PHE* 4.3 11.0 - - + -
32C LEU* 4.0 25.6 - - + -
52C VAL* 4.5 2.5 - - + -
56C VAL* 4.3 14.6 - - + -
132C LEU* 3.0 47.4 + - + +
133C VAL* 3.7 5.4 - - - +
135C SER* 1.3 75.3 - - - +
137C ILE* 1.3 59.0 + - - +
139C LEU* 4.4 0.2 - - - +
140C HIS* 3.0 33.1 + - - +
76D PHE* 4.9 1.1 - - + -
118D LEU* 3.9 11.2 - - + -
149D CYS* 3.4 32.8 - - - -
150D PHE* 3.4 16.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 137 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C LEU* 4.1 21.3 - - + +
34C TYR* 3.7 52.0 - - + -
48C LYS* 4.4 4.9 - - + +
49C GLU 6.1 0.2 - - - -
50C ALA* 5.9 1.8 - - + -
133C VAL* 3.0 23.8 + - + +
134C PHE* 4.4 3.4 - - - +
136C LEU* 1.3 75.1 - - - +
138C GLY* 1.3 66.3 + - - +
141C PHE* 3.0 51.7 + - + +
142C LYS 4.1 0.2 + - - -
143C ILE* 4.1 23.5 - - + +
145C PRO* 4.9 4.5 - - + -
150D PHE* 6.4 0.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 138 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C PHE 2.9 19.7 + - - -
135C SER* 5.2 0.2 - - - -
137C ILE* 1.3 78.2 - - - +
139C LEU* 1.3 59.0 + - - +
142C LYS* 3.0 29.8 + - - +
143C ILE 3.6 20.3 - - - +
145C PRO* 4.3 8.7 - - - +
103D HIS* 5.9 1.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 139 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C SER 3.1 15.8 + - - +
136C LEU* 4.4 1.1 - - - +
138C GLY* 1.3 77.6 - - - +
140C HIS* 1.3 66.2 + - - +
141C PHE 3.5 0.3 + - - -
142C LYS* 3.5 26.4 + - + +
69D SER* 4.4 2.9 - - - -
70D VAL 4.9 0.3 + - - -
74D ILE* 3.6 23.6 - - + +
101D ASN* 3.7 39.9 - - + +
103D HIS* 3.5 49.8 - - + +
118D LEU* 4.1 24.7 - - + +
120D GLU* 4.6 4.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 140 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C GLU 5.3 0.2 - - - -
50C ALA* 4.1 11.3 - - + +
136C LEU 3.0 21.4 + - - +
139C LEU* 1.3 77.2 - - - +
141C PHE* 1.3 96.2 + + + +
67D GLN* 4.1 17.2 - - + +
68D ARG 4.9 1.3 - - - -
69D SER* 3.3 27.3 + - - -
70D VAL* 3.0 34.1 + - + +
74D ILE* 3.9 1.9 - - - +
150D PHE* 3.2 51.3 - + + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 141 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C LYS* 3.7 53.4 - - + -
49C GLU 3.4 26.5 - - - -
50C ALA* 4.4 5.2 - - + -
137C ILE* 3.0 38.3 + - + +
140C HIS* 1.3 106.5 - + + +
142C LYS* 1.3 69.8 + - - +
143C ILE* 3.2 21.1 + - + +
70D VAL* 3.8 20.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 142 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C GLY 3.0 18.1 + - - +
139C LEU* 3.5 23.9 + - + +
141C PHE* 1.3 79.0 - - - +
143C ILE* 1.3 60.1 + - - +
70D VAL* 4.2 15.7 - - + -
71D GLU* 3.2 42.6 + - - +
100D LYS* 5.9 0.2 - - - +
101D ASN* 3.6 13.6 - - - +
120D GLU* 2.7 41.9 + - - -
----------------------------------------------------------
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