Contacts of the helix formed by residues 136 - 157 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B TYR* 2.9 25.9 + - + +
132B ILE 3.8 0.2 + - - -
134B GLU* 4.6 25.8 + - + +
135B GLY* 1.3 78.3 - - - +
137B ALA* 1.3 70.5 + - - +
138B ALA 3.4 1.6 - - - -
139B SER* 3.1 15.4 + - - -
140B ALA 3.2 6.2 + - - -
7J A 3.8 2.8 + - - -
8J G 2.6 67.8 + - - +
9J T 3.3 8.7 - - - +
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Residues in contact with ALA 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B TYR 3.8 2.6 + - - -
132B ILE* 4.6 10.9 - - + +
135B GLY 3.2 5.5 + - - +
136B LYS* 1.3 73.1 - - - +
138B ALA* 1.3 71.7 + - - +
140B ALA* 2.4 30.3 + - - +
141B LYS* 3.4 1.8 + - - -
171B ALA* 4.9 16.6 - - + -
172B LYS 5.3 1.8 - - - +
173B SER* 4.6 13.2 - - - -
176B ARG* 4.6 16.6 - - - +
9J T 4.1 0.8 + - - -
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Residues in contact with ALA 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B LYS 3.4 0.6 - - - -
137B ALA* 1.3 80.0 - - - +
139B SER* 1.3 67.9 + - - +
141B LYS* 2.6 30.1 + - - +
142B LEU* 3.3 7.5 + - + +
173B SER* 4.7 15.1 - - - -
176B ARG* 4.9 1.6 - - - +
9J T 3.4 28.8 + - + +
10J T 4.2 24.5 - - + +
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Residues in contact with SER 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B LYS* 6.1 1.0 - - - +
131B TYR* 4.4 6.7 - - - -
136B LYS* 3.1 16.0 + - - -
137B ALA 2.6 4.6 + - - -
138B ALA* 1.3 75.8 - - - +
140B ALA* 1.3 66.5 + - - -
142B LEU* 2.6 19.5 + - - +
143B ILE* 2.8 27.7 + - - +
8J G 3.8 18.8 + - - -
9J T 3.3 29.6 + - - +
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Residues in contact with ALA 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B LEU* 4.0 27.9 - - + +
131B TYR* 4.4 12.9 - - + +
132B ILE* 4.7 8.5 - - + -
136B LYS 3.2 4.2 + - - +
137B ALA* 2.4 22.0 + - - +
139B SER* 1.3 75.5 - - - +
141B LYS* 1.3 66.5 + - - +
143B ILE* 2.9 10.7 + - - +
144B ARG* 2.6 26.6 + - - +
171B ALA* 5.2 8.3 - - + +
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Residues in contact with LYS 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B ALA 3.4 1.2 + - - +
138B ALA* 2.6 23.1 + - - +
140B ALA* 1.3 77.9 - - + +
142B LEU* 1.3 62.4 + - + +
144B ARG* 3.1 5.7 - - - +
145B SER* 2.6 39.3 + - - -
170B ALA* 4.2 17.7 - - + +
171B ALA* 3.4 31.9 + - + +
172B LYS* 4.6 1.8 - - - +
173B SER* 4.2 26.8 + - - +
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Residues in contact with LEU 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B LYS* 4.0 31.9 - - + +
138B ALA* 3.4 18.8 - - + +
139B SER* 2.6 12.8 + - - +
141B LYS* 1.3 81.9 - - + +
143B ILE* 1.3 68.6 + - - +
145B SER* 4.1 7.1 - - - -
146B THR* 2.9 22.9 + - - -
9J T 4.7 10.3 - - + +
10J T 4.2 28.3 - - + +
18K T 5.6 9.0 - - + -
19K A 5.2 2.9 - - - +
20K A 4.3 12.3 - - - +
21K A 5.6 0.2 - - - +
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Residues in contact with ILE 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B LYS* 5.0 17.7 - - + +
106B ALA* 4.9 12.3 - - + -
107B ILE* 4.4 22.9 - - + +
127B MSE 4.5 19.5 - - + -
128B LEU* 4.6 5.4 - - + -
131B TYR* 3.1 42.0 - - + -
139B SER* 2.8 27.6 + - - +
140B ALA* 3.3 6.3 - - - +
142B LEU* 1.3 80.5 - - - +
144B ARG* 1.3 70.9 + - - +
146B THR* 3.5 1.6 - - - +
147B LEU* 2.7 20.7 + - + +
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Residues in contact with ARG 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B LEU* 3.7 23.7 - - + +
140B ALA 2.6 16.5 + - - +
141B LYS* 3.1 9.2 - - - +
143B ILE* 1.3 76.9 - - - +
145B SER* 1.3 75.1 + - - +
146B THR 2.7 0.7 + - - -
147B LEU* 2.7 15.7 + - - +
148B SER* 2.8 12.5 + - - -
165B VAL* 4.3 15.1 + - + +
166B ALA* 3.8 19.0 + - - +
168B THR* 2.5 44.9 + - - -
169B ARG* 4.3 3.3 - - - +
170B ALA* 3.1 39.3 - - - +
17K A 3.7 22.1 + - - -
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Residues in contact with SER 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B LYS* 2.6 20.3 + - - -
142B LEU* 4.1 8.1 - - - -
144B ARG* 1.3 83.3 - - - +
146B THR* 1.3 63.8 + - - +
148B SER* 3.0 18.3 - - - -
149B ASP* 3.2 6.2 + - - +
152B ARG* 4.2 5.8 + - - +
17K A 4.8 5.3 - - - +
18K T 4.0 30.7 + - - +
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Residues in contact with THR 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B TYR* 4.4 23.3 + - + +
100B TYR* 3.8 28.3 - - + -
103B LYS* 4.5 19.7 - - + -
104B ILE* 4.9 5.6 - - + -
107B ILE* 4.8 6.7 - - + -
142B LEU 2.9 21.7 + - - -
143B ILE 3.8 1.1 - - - +
144B ARG 2.7 3.2 + - - -
145B SER* 1.3 69.3 + - - +
147B LEU* 1.3 61.9 + - - +
148B SER 2.8 1.3 - - - -
149B ASP* 2.4 30.4 + - - +
150B ALA* 3.0 8.4 + - + +
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Residues in contact with LEU 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B LEU* 5.6 2.0 - - + -
80B LEU* 5.5 4.7 - - + -
107B ILE* 3.5 41.0 - - + +
111B LEU* 5.1 8.7 - - + -
124B ILE* 4.3 35.7 - - + -
127B MSE 5.4 6.5 - - + -
128B LEU* 6.1 0.4 - - + -
143B ILE* 2.7 18.2 + - + +
144B ARG* 3.2 12.3 - - - +
146B THR* 1.3 75.7 - - - +
148B SER* 1.3 68.1 + - - +
150B ALA* 3.0 15.2 + - + +
151B PHE* 3.0 31.8 + - + -
165B VAL* 4.3 11.4 - - + -
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Residues in contact with SER 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144B ARG* 2.8 10.7 + - - -
145B SER* 3.0 17.5 - - - -
146B THR 2.7 2.4 + - - -
147B LEU* 1.3 79.1 - - - +
149B ASP* 1.3 63.8 + - - -
151B PHE* 3.0 4.9 + - - +
152B ARG* 2.9 49.6 + - - -
163B ASN* 3.3 12.7 + - - +
165B VAL* 3.8 24.5 - - - +
166B ALA* 5.5 1.4 + - - -
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Residues in contact with ASP 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169A ARG* 4.4 6.6 + - - -
83B TYR* 2.3 30.8 + - - +
87B LEU* 4.7 1.2 - - - +
90B ARG* 4.3 22.3 + - - -
100B TYR* 5.9 1.7 - - - -
145B SER 3.2 4.1 + - - +
146B THR* 2.4 23.1 + - - +
148B SER* 1.3 75.7 - - - +
150B ALA* 1.3 64.4 + - - +
152B ARG* 2.7 44.9 + - - +
153B GLU* 3.1 19.2 + - - +
18K T 5.1 2.2 - - - +
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Residues in contact with ALA 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B TRP* 3.1 20.1 - - + +
80B LEU* 5.5 7.0 - - + -
83B TYR* 3.5 41.2 + - + -
107B ILE* 6.4 0.9 - - + -
146B THR* 3.0 6.5 + - + +
147B LEU* 3.5 11.7 - - + +
149B ASP* 1.3 80.0 - - - +
151B PHE* 1.3 61.8 + - + +
153B GLU* 3.4 0.5 + - - -
154B ALA* 2.7 27.7 + - - +
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Residues in contact with PHE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B LEU* 4.4 14.1 - - + -
79B TRP* 5.5 3.1 - + - -
111B LEU* 6.5 0.7 - - + -
116B LEU* 4.6 26.9 - - + -
119B ILE* 4.4 26.5 - - + -
124B ILE* 5.4 4.0 - - + -
147B LEU* 3.0 38.2 + - + -
148B SER 3.0 9.1 + - - +
149B ASP 3.0 0.2 - - - -
150B ALA* 1.3 80.5 - - + +
152B ARG* 1.3 71.4 + - - +
154B ALA* 2.5 24.0 + - + +
155B ILE* 2.8 8.1 + - + +
160B ILE* 4.3 6.3 - - + +
162B THR 4.5 4.7 - - - -
163B ASN* 4.0 15.7 - - + +
164B HIS* 4.1 30.3 - + + -
165B VAL* 4.1 9.0 - - + -
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Residues in contact with ARG 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A ALA* 4.6 9.5 - - - +
169A ARG* 2.9 40.9 - - - +
145B SER* 4.2 3.6 + - - +
148B SER* 2.9 34.7 + - - +
149B ASP* 2.7 39.2 + - - +
151B PHE* 1.3 73.7 - - - +
153B GLU* 1.3 55.1 + - - +
155B ILE* 2.7 26.2 + - - +
156B ALA* 2.9 9.4 + - - +
163B ASN* 4.2 11.9 - - + +
17K A 4.4 20.8 + - - -
18K T 2.7 39.6 + - - -
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Residues in contact with GLU 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A ARG* 4.5 18.5 - - - +
79B TRP* 3.2 14.1 - - + -
83B TYR* 4.9 6.0 - - + -
86B ILE* 3.2 33.2 - - + +
90B ARG* 3.1 28.6 + - - -
149B ASP* 3.1 20.0 + - - +
150B ALA 4.2 3.8 - - - +
152B ARG* 1.3 76.9 - - - +
154B ALA* 1.3 66.5 - - - +
156B ALA* 2.8 29.8 + - + +
157B GLU* 3.1 8.4 + - + +
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Residues in contact with ALA 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79B TRP* 2.9 29.3 - - + +
116B LEU* 4.1 11.4 - - + -
150B ALA 2.7 15.2 + - - +
151B PHE* 2.5 22.8 + - - +
153B GLU* 1.3 72.6 - - - +
155B ILE* 1.3 59.8 + - - +
157B GLU* 3.0 12.3 + - - -
158B GLY 3.0 6.8 + - - -
159B HIS* 3.4 13.2 + - + -
160B ILE* 3.2 15.3 - - + -
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Residues in contact with ILE 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A THR* 3.9 9.8 - - - +
164A HIS* 5.5 7.0 - - + +
167A ALA* 4.0 21.5 - - + -
151B PHE* 2.8 10.2 + - + +
152B ARG* 2.7 13.5 + - - +
154B ALA* 1.3 73.0 - - - +
156B ALA* 1.3 58.4 + - - +
157B GLU 3.1 0.2 - - - -
158B GLY* 2.9 16.1 + - - +
160B ILE* 2.8 47.2 - - + +
161B THR* 3.6 7.4 - - - +
162B THR* 3.3 36.1 - - - +
163B ASN* 3.9 10.1 - - + +
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Residues in contact with ALA 156 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A THR* 2.9 27.6 - - + +
122A LYS* 3.7 12.1 + - - +
125A ALA* 5.0 3.5 - - - +
167A ALA* 4.7 12.8 - - - +
168A THR* 5.4 4.3 - - - +
169A ARG* 6.3 0.2 - - - -
152B ARG 2.9 5.7 + - - +
153B GLU* 2.8 36.3 - - + +
155B ILE* 1.3 78.1 - - - +
157B GLU* 1.3 62.4 + - + +
158B GLY 3.2 0.7 - - - -
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Residues in contact with GLU 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A LYS* 3.6 40.7 + - - +
79B TRP* 4.4 10.1 - - + -
82B ARG* 3.6 26.1 + - - +
86B ILE* 5.6 2.0 - - + +
153B GLU 3.1 10.1 + - - +
154B ALA 3.0 5.6 + - - +
156B ALA* 1.3 82.0 - - + +
158B GLY* 1.3 63.0 + - - +
159B HIS* 3.4 29.6 + - + +
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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) + - + + + + + -
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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