Contacts of the helix formed by residues 114 - 141 (chain A) in PDB entry 2IAI
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 THR 114 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A TYR* 4.5 15.5 + - - -
54A GLU* 3.8 24.7 + - - +
57A LEU* 5.0 1.0 - - - -
113A ASN* 3.8 20.1 + - - +
115A GLY* 1.3 65.7 + - - +
116A THR* 3.7 4.9 - - - -
117A GLU* 2.8 44.0 + - - -
118A ARG* 2.9 38.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 115 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A GLU* 3.8 5.2 + - - -
114A THR* 1.3 74.2 + - - +
116A THR* 1.3 56.5 + - - +
118A ARG* 3.4 20.7 + - - +
119A TRP* 2.9 30.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 116 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A GLU* 2.6 37.4 + - - +
57A LEU* 4.3 12.3 - - + -
58A ARG* 3.6 51.4 - - + +
61A VAL* 4.3 9.4 - - + -
114A THR* 3.2 1.5 - - - +
115A GLY* 1.3 77.5 - - - +
117A GLU* 1.3 57.9 + - - +
119A TRP* 3.3 10.1 + - + +
120A ALA* 2.9 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 117 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A TYR* 4.1 17.8 - - - +
28A ASP* 4.5 6.9 - - - +
57A LEU* 3.8 22.5 - - + +
110A VAL* 3.4 24.4 - - + +
111A ARG 3.9 6.8 + - - -
112A GLY* 3.3 39.2 + - - +
113A ASN 3.8 1.0 + - - -
114A THR* 2.8 36.7 + - - +
116A THR* 1.3 71.3 - - - +
118A ARG* 1.3 60.9 + - - +
120A ALA* 3.3 3.1 + - - +
121A LEU* 2.9 35.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 118 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A GLY 4.1 12.6 - - - +
113A ASN* 3.1 52.8 - - + +
114A THR* 2.9 19.1 - - - +
115A GLY* 3.6 24.5 - - - +
117A GLU* 1.3 75.7 - - - +
119A TRP* 1.3 58.5 + - - +
121A LEU* 3.3 10.2 + - + +
122A GLU* 2.9 39.8 + - - +
125A ARG* 4.8 0.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 119 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ARG* 4.5 20.0 - - + -
61A VAL* 4.3 13.9 - - + -
62A SER* 4.1 23.3 - - - -
65A LEU* 4.1 20.6 - - + -
66A ASP* 6.1 0.9 - - - -
115A GLY 2.9 18.0 + - - +
116A THR* 3.5 10.8 - - + +
117A GLU 3.2 0.2 - - - -
118A ARG* 1.3 76.9 - - - +
120A ALA* 1.3 68.4 + - + +
122A GLU* 3.2 20.9 + - - +
123A ARG* 2.9 59.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 120 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A VAL* 4.0 24.5 - - + -
65A LEU* 4.1 6.7 - - + -
107A LEU* 4.1 17.8 - - + +
110A VAL* 4.6 9.4 - - + -
116A THR 2.9 16.1 + - - +
117A GLU* 3.3 8.0 + - - +
119A TRP* 1.3 80.6 - - + +
121A LEU* 1.3 57.6 + - - +
123A ARG* 3.3 2.8 + - - +
124A ARG* 2.9 32.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 121 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A VAL* 3.6 33.4 - - + +
111A ARG* 5.1 1.8 - - - -
112A GLY 4.0 21.1 - - - +
117A GLU 2.9 22.7 + - - +
118A ARG* 3.7 9.0 - - + +
119A TRP 3.2 0.2 - - - -
120A ALA* 1.3 73.9 - - - +
122A GLU* 1.3 64.0 + - - +
124A ARG* 3.3 22.3 + - + +
125A ARG* 3.0 46.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 122 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ARG* 2.9 25.1 + - + +
119A TRP* 3.2 25.0 + - - +
121A LEU* 1.3 73.1 - - - +
123A ARG* 1.3 67.4 + - + +
125A ARG* 3.1 31.6 + - - +
126A GLU* 2.9 22.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 123 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU* 3.8 21.3 - - + +
69A PHE* 3.2 60.5 - - + +
119A TRP* 2.9 58.5 + - + +
120A ALA 3.6 4.3 - - - +
122A GLU* 1.3 77.1 - - - +
124A ARG* 1.3 59.9 + - - +
126A GLU* 3.2 16.2 + - - +
127A PHE 3.0 22.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 124 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU* 4.2 3.4 - - + -
68A LEU* 6.0 0.9 - - + -
107A LEU* 3.8 42.9 + - + +
108A LEU* 3.3 45.9 + - - +
110A VAL* 5.6 1.2 + - - -
120A ALA 2.9 18.0 + - - +
121A LEU* 3.7 22.7 - - + +
122A GLU 3.3 0.2 - - - -
123A ARG* 1.3 76.3 - - - +
125A ARG* 1.3 58.4 + - + +
127A PHE* 3.4 8.8 + - - +
128A ASP* 2.9 27.9 + - - +
155A ARG* 5.9 3.0 - - - +
158A PHE* 5.8 4.0 - - - -
162A ASN* 3.9 12.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 125 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ARG 5.0 0.2 + - - -
121A LEU* 3.0 39.9 + - + +
122A GLU* 3.1 42.1 + - - +
124A ARG* 1.3 75.4 - - + +
126A GLU* 1.3 61.4 + - - +
128A ASP* 3.4 9.8 + - - +
129A HIS* 2.9 44.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 126 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A PHE* 4.0 17.5 - - + -
122A GLU 2.9 12.7 + - - +
123A ARG* 3.2 23.3 + - - +
125A ARG* 1.3 73.2 - - - +
127A PHE* 1.3 65.3 + - - +
129A HIS* 3.2 18.1 + - - +
130A ARG* 3.0 44.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 127 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU* 5.8 1.1 - - + -
68A LEU* 3.3 51.4 - - + -
69A PHE* 3.6 21.7 - + + -
71A ILE* 5.1 0.7 - - + -
72A LEU* 3.8 29.4 - - + -
89A VAL* 5.0 0.2 - - + -
93A MSE 4.0 29.6 - - + -
123A ARG 3.0 13.1 + - - +
124A ARG* 3.6 12.3 - - - +
126A GLU* 1.3 75.1 - - - +
128A ASP* 1.3 65.9 + - - +
130A ARG* 3.1 6.1 + - - +
131A VAL* 3.0 31.1 + - + +
158A PHE* 3.8 30.3 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 128 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ARG 2.9 15.7 + - - +
125A ARG* 3.5 13.1 - - - +
127A PHE* 1.3 77.8 - - - +
129A HIS* 1.3 66.0 + - - +
131A VAL* 3.1 2.4 + - - +
132A ALA* 2.9 29.1 + - - +
151A ARG* 4.9 5.7 + - - +
154A THR* 3.6 21.0 - - - +
155A ARG* 3.4 40.7 + - - +
158A PHE* 4.0 18.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 129 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ARG* 2.9 35.3 + - + +
126A GLU* 3.2 23.3 + - - +
128A ASP* 1.3 81.1 + - - +
130A ARG* 1.3 57.2 + - - +
132A ALA* 3.4 7.2 + - - +
133A ALA* 3.0 28.4 + - - +
151A ARG* 3.1 34.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 130 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A PHE* 4.4 19.2 + - - -
72A LEU* 3.7 50.3 + - + +
73A ASP* 4.0 24.9 + - - -
78A ARG* 5.2 3.8 - - - +
126A GLU* 3.0 35.7 + - - +
127A PHE 3.1 7.8 + - - +
129A HIS* 1.3 76.7 - - - +
131A VAL* 1.3 63.8 + - - +
133A ALA* 3.1 16.0 + - - +
134A LEU* 3.1 17.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 131 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A LEU* 4.2 8.3 - - + -
86A LEU* 3.9 21.5 - - + -
89A VAL* 4.2 19.5 - - + -
90A VAL* 5.9 1.8 - - + -
93A MSE 4.6 1.1 - - - -
127A PHE* 3.0 32.4 + - + +
128A ASP 3.9 1.3 - - - +
130A ARG* 1.3 76.4 - - - +
132A ALA* 1.3 61.7 + - - +
134A LEU* 3.0 17.4 + - + +
135A LEU* 3.1 12.7 + - + +
154A THR* 4.5 5.4 - - + +
158A PHE* 3.6 39.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 132 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ASP* 2.9 19.8 + - - +
129A HIS* 3.6 5.2 - - - +
131A VAL* 1.3 76.5 - - - +
133A ALA* 1.3 57.1 + - - +
135A LEU 3.2 0.7 + - - -
136A LYS* 2.9 25.0 + - - +
150A VAL* 3.4 11.9 - - + +
151A ARG* 4.0 32.5 - - + +
154A THR* 3.6 27.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 133 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A HIS 3.0 13.4 + - - +
130A ARG* 3.1 12.1 + - - +
132A ALA* 1.3 75.3 - - - +
134A LEU* 1.3 60.8 + - + +
136A LYS* 3.3 9.6 + - + +
137A ASP* 2.9 39.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 134 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A LEU* 4.7 7.6 - - + -
77A ALA* 4.7 9.0 - - + +
82A ALA* 4.1 7.6 - - + +
85A ARG* 4.6 22.7 - - + +
86A LEU* 4.2 22.0 - - + -
89A VAL* 3.8 34.3 - - + -
130A ARG 3.1 15.5 + - - +
131A VAL* 3.0 16.0 + - - +
133A ALA* 1.3 78.1 - - + +
135A LEU* 1.3 61.6 + - - +
137A ASP* 3.2 14.0 + - + +
138A ALA* 2.9 22.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 135 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A LEU* 4.0 30.7 - - + +
131A VAL* 3.1 12.1 + - + +
132A ALA 3.2 7.6 + - - +
134A LEU* 1.3 75.7 - - - +
136A LYS* 1.3 57.4 + - - +
138A ALA* 3.2 3.4 + - - +
139A ALA* 2.9 26.0 + - - +
144A VAL* 3.9 22.3 - - + +
148A VAL 5.9 0.4 - - - +
150A VAL* 3.8 29.8 - - + -
153A ALA* 4.2 12.8 - - + -
154A THR* 3.5 32.3 - - + +
157A VAL* 5.4 7.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 136 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ALA 2.9 17.6 + - - +
133A ALA* 3.5 10.3 - - + +
135A LEU* 1.3 76.3 - - - +
137A ASP* 1.3 59.0 + - - +
139A ALA* 3.2 4.3 + - + +
140A ALA* 3.0 28.8 + - + +
150A VAL* 3.8 25.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 137 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ALA* 3.6 15.7 - - + +
133A ALA* 2.9 23.5 + - - +
134A LEU* 3.2 17.0 + - + +
136A LYS* 1.3 78.8 - - - +
138A ALA* 1.3 65.1 + - - +
140A ALA* 3.2 8.1 + - - +
141A GLU* 3.0 31.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 138 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ALA* 3.3 8.7 - - - +
83A ALA* 3.9 26.9 - - + +
86A LEU* 4.7 2.5 - - + -
134A LEU 2.9 13.7 + - - +
135A LEU* 3.2 7.4 + - - +
137A ASP* 1.3 78.1 - - - +
139A ALA* 1.3 57.8 + - - +
141A GLU* 3.4 3.4 + - - +
142A GLY 3.3 3.6 + - - -
143A ASP* 3.0 28.0 + - - +
144A VAL* 3.2 26.6 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 139 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A LEU 2.9 12.7 + - - +
136A LYS* 3.5 11.4 - - + +
138A ALA* 1.3 74.5 - - - +
140A ALA* 1.3 64.5 + - - +
142A GLY* 3.1 14.6 + - - -
144A VAL* 3.5 29.8 - - + +
145A ARG 4.5 5.8 - - - +
146A ALA* 5.6 4.7 - - + +
150A VAL* 4.6 11.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 140 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A LYS* 3.0 14.3 + - + +
137A ASP* 3.2 12.1 + - - +
139A ALA* 1.3 79.6 - - - +
141A GLU* 1.3 60.2 + - + +
142A GLY* 3.2 1.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 141 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A THR* 3.8 12.9 - - - +
82A ALA* 2.9 42.9 + - - +
83A ALA 4.5 0.2 + - - -
137A ASP* 3.0 17.9 + - - +
138A ALA* 3.9 6.1 - - - +
139A ALA 3.2 0.2 - - - -
140A ALA* 1.3 77.0 - - + +
142A GLY* 1.3 60.6 + - - +
143A ASP* 3.3 15.4 + - - +
----------------------------------------------------------
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