Contacts of the helix formed by residues 136 - 157 (chain A) in PDB entry 1Z1G
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 LYS 136 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A TYR* 3.0 23.3 + - + +
134A GLU* 4.5 24.9 + - + +
135A GLY* 1.3 78.1 - - - +
137A ALA* 1.3 68.6 + - - +
138A ALA 3.4 2.2 - - - -
139A SER* 3.0 21.2 - - - -
140A ALA* 3.3 2.9 + - - +
7I G 3.0 4.6 + - - -
8I C 2.0 83.0 + - - +
9I T 3.2 8.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 137 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A TYR 4.0 1.5 + - - -
132A ILE* 4.6 10.5 - - + +
135A GLY* 3.0 8.8 + - - +
136A LYS* 1.3 78.5 - - - +
138A ALA* 1.3 71.3 + - - +
140A ALA* 2.7 21.9 + - - +
141A LYS 3.5 1.7 + - - -
171A ALA* 4.5 16.6 - - + +
172A LYS 5.3 2.2 - - - +
173A SER* 4.7 15.9 - - - -
176A ARG* 4.4 11.9 - - - +
9I T 4.2 0.6 + - - -
----------------------------------------------------------
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
----------------------------------------------------------
136A LYS 3.4 0.8 - - - -
137A ALA* 1.3 79.7 - - - +
139A SER* 1.3 65.9 + - - +
141A LYS* 2.7 27.2 + - + +
142A LEU* 3.2 7.6 + - + +
171A ALA 6.1 0.2 - - - -
173A SER* 4.6 18.5 - - - +
176A ARG* 5.6 0.8 - - - +
9I T 4.0 22.1 + - + +
10I T 4.1 24.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 139 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LYS* 5.4 3.4 - - - +
131A TYR* 3.9 9.3 - - - -
136A LYS* 3.0 21.5 + - - -
137A ALA 2.8 1.8 + - - -
138A ALA* 1.3 73.4 - - - +
140A ALA* 1.3 68.4 + - - +
142A LEU* 2.6 21.2 + - - +
143A ILE* 2.9 30.1 + - - +
8I C 4.6 12.7 + - - -
9I T 3.3 25.6 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
128A LEU* 3.5 36.6 - - + +
131A TYR* 4.4 5.1 - - + +
132A ILE* 4.7 4.7 - - + -
136A LYS 3.3 2.4 + - - +
137A ALA* 2.7 21.9 + - - +
139A SER* 1.3 76.5 - - - +
141A LYS* 1.3 62.2 + - - +
143A ILE* 3.2 12.3 + - - +
144A ARG* 2.7 26.8 + - - +
171A ALA* 4.6 10.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 141 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ALA 3.5 1.4 + - - +
138A ALA* 2.7 25.6 + - + +
140A ALA* 1.3 77.1 - - - +
142A LEU* 1.3 62.3 + - + +
144A ARG* 3.0 8.2 - - - +
145A SER* 2.6 36.8 + - - -
170A ALA* 4.7 12.3 - - + -
171A ALA* 4.4 27.0 + - - +
172A LYS* 4.4 24.0 - - - +
173A SER* 5.0 7.5 - - - +
15J T 5.2 2.4 + - - -
16J T 5.4 6.0 + - - +
17J A 6.1 6.1 - - - -
18J A 5.9 4.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 142 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LYS* 3.9 28.9 - - + -
138A ALA 4.4 7.4 - - - +
139A SER* 2.6 13.5 + - - +
141A LYS* 1.3 81.4 - - + +
143A ILE* 1.3 58.8 + - - +
145A SER* 3.4 13.9 - - - +
146A THR* 2.2 37.9 + - - +
9I T 5.3 4.9 - - + +
10I T 3.9 33.0 - - + +
18J A 4.8 13.7 - - + +
19J A 4.4 20.0 - - - +
20J A 4.8 5.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LYS* 4.5 15.0 - - + +
106A ALA* 4.6 16.6 - - + -
107A ILE* 4.7 15.3 - - + +
127A MSE 4.3 20.6 - - + -
128A LEU* 3.9 14.4 - - + -
131A TYR* 3.4 31.0 - - + -
139A SER* 2.9 37.4 + - - +
140A ALA* 3.3 9.2 - - - +
142A LEU* 1.3 74.8 - - - +
144A ARG* 1.3 77.0 + - - +
146A THR* 3.3 2.6 + - - -
147A LEU* 2.7 21.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ILE* 6.5 0.9 - - - -
128A LEU* 3.8 18.2 - - + -
140A ALA 2.7 9.5 + - - +
141A LYS* 3.0 9.4 - - - +
143A ILE* 1.3 88.3 - - - +
145A SER* 1.3 70.9 + - - +
146A THR 2.6 0.5 + - - -
147A LEU* 2.6 15.6 + - - +
148A SER* 2.9 11.6 + - - -
165A VAL* 4.0 13.4 + - + +
166A ALA* 3.7 16.6 + - - +
168A THR* 2.2 54.1 + - + +
169A ARG* 4.2 1.9 - - - +
170A ALA* 3.7 39.8 - - - +
16J T 5.1 5.5 + - - -
17J A 4.4 14.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A TYR* 5.5 2.9 - - - -
141A LYS* 2.6 19.5 + - - -
142A LEU* 3.4 21.0 - - - +
144A ARG* 1.3 80.4 - - - +
146A THR* 1.3 72.1 + - - +
148A SER* 2.9 22.3 + - - -
149A ASP* 3.0 7.1 + - - +
17J A 5.1 13.0 - - - +
18J A 4.6 22.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A TYR* 3.7 17.7 - - + +
100A TYR* 3.3 44.1 - - + +
103A LYS* 4.4 14.8 - - + +
104A ILE* 6.1 1.8 - - + +
107A ILE* 5.3 4.7 - - - -
142A LEU* 2.2 32.8 + - - +
143A ILE* 3.3 2.8 + - - -
144A ARG 2.6 3.4 + - - -
145A SER* 1.3 73.0 + - - +
147A LEU* 1.3 71.8 + - - +
148A SER 2.8 1.8 - - - -
149A ASP* 2.5 16.9 + - + +
150A ALA* 2.8 11.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A LEU* 6.5 0.7 - - + -
80A LEU* 5.4 5.2 - - + -
107A ILE* 4.5 33.1 - - + +
111A LEU* 5.7 5.8 - - + -
124A ILE* 3.5 40.2 - - + -
127A MSE 5.6 5.8 - - + -
143A ILE* 2.7 14.3 + - + +
144A ARG* 2.6 16.1 + - - +
146A THR* 1.3 75.6 - - - +
148A SER* 1.3 64.2 + - - +
150A ALA* 3.0 9.8 + - + +
151A PHE* 3.0 35.7 + - + -
165A VAL* 3.7 11.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A ARG* 2.9 10.3 + - - -
145A SER* 2.9 16.2 + - - -
146A THR 2.8 0.2 - - - -
147A LEU* 1.3 77.3 - - - +
149A ASP* 1.3 66.8 + - - -
151A PHE* 2.9 8.3 + - - +
152A ARG* 2.9 30.8 + - - +
163A ASN* 4.1 9.2 + - - +
165A VAL* 3.4 36.4 - - - +
17J A 5.5 2.9 + - - -
18J A 5.0 3.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A TYR* 2.2 33.8 + - - +
87A LEU* 4.5 4.0 - - - +
90A ARG* 4.9 14.7 + - - -
100A TYR* 5.2 4.8 + - + -
145A SER* 3.0 6.0 + - - +
146A THR* 2.5 14.2 + - + +
148A SER* 1.3 79.8 - - - +
150A ALA* 1.3 66.4 + - - +
152A ARG* 2.7 31.3 + - - +
153A GLU* 3.1 18.1 + - - +
18J A 4.4 19.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A TRP* 3.5 13.8 + - + +
80A LEU* 4.7 9.0 - - + -
83A TYR* 3.2 41.9 + - + -
107A ILE* 6.2 0.9 - - + -
146A THR 2.8 3.6 + - - +
147A LEU* 3.2 19.7 - - + +
149A ASP* 1.3 79.2 - - - +
151A PHE* 1.3 52.9 - - + +
153A GLU* 3.4 3.1 + - - +
154A ALA* 2.8 34.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A LEU* 6.0 3.6 - - + -
79A TRP* 6.1 1.1 - + - -
116A LEU* 5.3 4.3 - - + -
119A ILE* 3.9 28.9 - - + -
124A ILE* 4.6 13.9 - - + -
147A LEU* 3.0 42.0 + - + +
148A SER* 2.9 10.7 + - - +
149A ASP 2.9 0.6 + - - -
150A ALA* 1.3 76.0 - - + +
152A ARG* 1.3 72.5 + - - +
154A ALA* 2.6 19.2 + - + +
155A ILE* 2.8 13.3 + - + +
160A ILE* 4.3 19.7 - - + -
162A THR 4.3 3.6 - - - -
163A ASN* 3.9 17.5 - - + -
164A HIS* 3.7 33.0 - + + -
165A VAL* 4.5 3.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A SER* 2.9 20.4 + - - +
149A ASP* 2.7 28.5 + - - +
151A PHE* 1.3 75.9 - - - +
153A GLU* 1.3 57.2 + - + +
155A ILE* 2.5 43.0 + - + +
156A ALA* 2.7 11.2 + - + +
163A ASN* 5.2 13.3 - - - +
166A ALA* 6.2 2.0 - - - +
169D ARG* 6.0 8.3 - - + -
17J A 4.9 13.1 + - - -
18J A 4.5 19.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A TRP* 3.8 10.8 - - + -
83A TYR* 4.8 8.0 - - + -
86A ILE* 4.1 20.4 - - + +
90A ARG* 3.8 20.3 + - - -
149A ASP* 3.1 23.0 + - - +
150A ALA* 3.6 8.5 - - - +
151A PHE 2.8 0.8 + - - -
152A ARG* 1.3 84.0 - - + +
154A ALA* 1.3 66.7 + - - +
156A ALA* 2.7 23.9 + - - +
157A GLU* 2.9 20.3 + - + +
169D ARG* 3.2 43.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A TRP* 3.1 34.2 - - + +
116A LEU* 5.2 2.7 - - + -
150A ALA 2.8 15.6 + - - +
151A PHE* 2.6 22.1 + - + +
153A GLU* 1.3 72.6 - - - +
155A ILE* 1.3 53.8 + - - +
157A GLU* 3.1 4.9 + - - +
158A GLY 3.0 19.8 + - - -
159A HIS* 3.1 17.4 + - + +
160A ILE* 4.2 18.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A PHE* 2.8 13.9 + - + +
152A ARG* 2.5 21.8 + - - +
154A ALA* 1.3 72.4 - - - +
156A ALA* 1.3 54.7 + - - +
157A GLU 3.0 1.6 - - - -
158A GLY* 2.8 21.7 + - - -
160A ILE* 4.0 30.8 - - + +
161A THR* 3.8 7.6 - - - +
162A THR* 3.7 13.7 - - - +
163A ASN* 3.7 34.3 - - + +
121D THR* 4.0 8.1 - - - +
167D ALA* 5.0 15.8 - - + +
----------------------------------------------------------
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
----------------------------------------------------------
152A ARG* 2.7 8.8 + - + +
153A GLU* 2.7 28.5 + - + +
155A ILE* 1.3 77.7 - - - +
157A GLU* 1.3 62.3 + - + +
158A GLY 3.4 0.8 + - - -
121D THR* 4.1 11.2 - - - +
125D ALA* 3.8 14.2 - - - +
167D ALA 4.4 19.5 - - - +
168D THR* 4.7 14.8 - - - +
169D ARG* 4.7 13.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A TRP* 3.8 21.7 - - + -
82A ARG* 3.5 27.3 + - - -
86A ILE* 4.2 10.5 - - - +
153A GLU* 2.9 15.6 + - - +
154A ALA 3.3 5.2 - - - +
156A ALA* 1.3 85.0 - - + +
158A GLY* 1.3 62.2 + - - +
159A HIS* 3.4 17.9 + - + +
122D LYS* 3.7 25.2 - - + +
125D ALA* 4.5 14.4 - - + -
129D ASN* 2.9 28.1 + - - +
169D ARG* 4.2 9.9 + - - +
----------------------------------------------------------
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