Contacts of the helix formed by residues 154 - 177 (chain B) in PDB entry 4CEJ
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 GLY 154 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B TYR* 3.3 23.7 - - - -
153B ARG* 1.3 83.3 - - - +
155B GLU* 1.3 58.0 + - - +
156B ARG 3.4 2.7 - - - -
157B VAL* 3.6 15.3 + - - +
158B LEU* 3.0 31.0 + - - +
628B ASP* 3.9 3.6 - - - +
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Residues in contact with GLU 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B SER 3.3 14.9 - - - +
147B GLY* 3.0 27.0 - - - +
149B ALA 3.9 11.7 - - - +
152B TYR* 3.2 38.1 + - + +
153B ARG 3.3 1.0 - - - -
154B GLY* 1.3 75.0 - - - +
156B ARG* 1.3 61.3 + - - +
158B LEU* 3.8 4.2 - - - +
159B SER* 2.9 29.3 + - - -
631B TRP* 3.6 31.2 - - + -
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Residues in contact with ARG 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
392A GLU* 3.5 32.6 + - - +
147B GLY 5.1 2.5 - - - -
148B THR* 6.2 0.2 - - - +
153B ARG 4.8 4.6 + - - +
154B GLY 3.4 0.4 - - - -
155B GLU* 1.3 78.6 - - - +
157B VAL* 1.3 73.9 + - + +
159B SER* 2.6 22.8 + - - -
160B GLU* 3.0 47.6 + - + +
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Residues in contact with VAL 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A TYR* 6.2 0.2 - - + -
122A TYR* 3.8 19.7 - - + +
392A GLU* 4.5 23.8 - - + +
109B VAL* 4.9 3.8 - - + -
153B ARG 5.5 0.7 - - - +
154B GLY* 3.6 16.1 + - - +
155B GLU 3.4 0.2 - - - -
156B ARG* 1.3 90.9 - - + +
158B LEU* 1.3 58.7 + - - +
160B GLU* 3.1 16.4 + - - +
161B LYS* 2.9 56.4 + - + +
628B ASP* 5.9 0.7 - - - +
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Residues in contact with LEU 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B TYR* 4.6 0.7 - - + -
154B GLY 3.0 18.8 + - - +
155B GLU* 3.8 3.6 - - - +
157B VAL* 1.3 76.5 - - - +
159B SER* 1.3 56.9 + - - +
161B LYS* 3.3 8.2 + - + +
162B LEU* 2.9 43.7 + - + +
624B LEU* 3.6 31.0 - - + -
628B ASP* 3.7 29.3 + - + +
631B TRP* 3.5 36.3 - - + -
632B LEU* 3.8 21.1 - - + -
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Residues in contact with SER 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B ALA* 3.6 16.7 - - - +
147B GLY* 3.6 30.0 - - - -
148B THR* 3.8 9.7 + - - +
155B GLU 2.9 16.1 + - - -
156B ARG* 2.6 25.1 + - - -
158B LEU* 1.3 74.2 - - - +
160B GLU* 1.3 61.3 + - - +
162B LEU* 3.5 7.4 + - - +
163B HIS* 2.9 29.5 + - - +
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Residues in contact with GLU 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B LYS* 3.3 41.9 - - + +
109B VAL* 3.8 22.3 - - + +
156B ARG* 3.0 49.1 + - + +
157B VAL* 3.3 14.4 - - - +
159B SER* 1.3 79.2 + - - +
161B LYS* 1.3 66.1 + - - +
163B HIS* 3.1 7.5 + - - +
164B ASP* 3.1 27.4 + - - +
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Residues in contact with LYS 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A LYS* 5.8 2.6 + - - +
122A TYR* 3.9 24.9 + - - -
109B VAL* 3.7 14.1 - - + +
110B TYR* 3.3 33.1 - - + +
157B VAL* 2.9 37.7 + - + +
158B LEU* 3.5 15.0 - - + +
160B GLU* 1.3 75.6 - - - +
162B LEU* 1.3 57.8 + - - +
163B HIS 3.2 0.3 + - - -
164B ASP* 3.2 3.8 + - - +
165B LEU* 2.9 34.4 + - + +
623B VAL* 3.3 26.9 + - + +
624B LEU* 4.7 3.6 - - + -
625B SER* 4.8 3.8 - - - +
628B ASP* 3.3 19.8 + - - +
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Residues in contact with LEU 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B PHE* 4.1 19.3 - - + -
140B ILE* 3.6 23.7 - - + +
143B MET* 3.8 45.5 - - + +
144B ALA* 4.1 11.9 - - + -
158B LEU* 2.9 47.8 + - + +
159B SER* 3.8 4.5 - - - +
161B LYS* 1.3 73.6 - - - +
163B HIS* 1.3 49.7 + - - +
165B LEU* 3.9 9.9 - - + -
166B SER* 2.7 37.0 + - - -
624B LEU* 4.6 7.6 - - + -
631B TRP* 6.2 0.4 - - + -
632B LEU* 4.6 4.0 - - + -
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Residues in contact with HIS 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106B GLU 3.3 26.5 - - - -
108B LYS* 3.4 38.8 - - + +
144B ALA* 3.9 10.5 - - + +
145B GLU* 5.5 7.4 - - - -
159B SER 2.9 15.6 + - - +
160B GLU* 3.1 10.1 + - - +
162B LEU* 1.3 73.6 - - - +
164B ASP* 1.3 78.2 + - - +
166B SER* 2.3 27.0 + - - -
167B ILE* 3.1 33.8 + - + +
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Residues in contact with ASP 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107B PHE* 3.4 26.2 - - + +
108B LYS* 2.9 22.4 + - - +
109B VAL* 3.1 27.6 + - - +
110B TYR* 3.1 26.2 + - + +
160B GLU 3.1 11.6 + - - +
161B LYS 3.6 4.9 - - - +
163B HIS* 1.3 86.8 + - - +
165B LEU* 1.3 63.5 + - - +
167B ILE* 3.1 7.7 + - - +
168B LEU* 3.1 26.5 + - + +
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Residues in contact with LEU 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B TYR* 4.6 8.1 - - + -
123B VAL* 4.4 27.4 - - + -
126B MET* 4.0 22.9 - - + -
127B LEU* 4.2 6.2 - - + +
130B PHE* 4.3 12.6 - - + -
140B ILE* 4.8 1.6 - - + -
161B LYS 2.9 24.2 + - - +
162B LEU* 3.8 20.0 - - + +
164B ASP* 1.3 75.9 - - - +
166B SER* 1.3 57.6 + - - +
168B LEU* 3.3 7.6 + - + +
169B TYR* 2.8 32.1 + - - +
623B VAL* 3.5 37.2 - - + -
624B LEU* 4.7 2.2 - - + -
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Residues in contact with SER 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B PRO* 4.6 2.0 - - - +
140B ILE* 3.7 18.6 - - - -
141B ARG* 3.9 30.9 - - - +
144B ALA* 4.8 0.3 - - - +
162B LEU 2.7 16.7 + - - -
163B HIS* 2.3 34.0 + - - -
165B LEU* 1.3 73.0 - - - +
167B ILE* 1.3 60.0 + - - +
169B TYR* 3.8 5.1 - - - +
170B GLN* 2.9 34.6 + - - +
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Residues in contact with ILE 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B HIS* 4.2 18.8 - - + -
106B GLU* 3.4 43.5 - - + +
107B PHE* 4.5 6.5 - - + -
163B HIS* 3.1 50.0 + - + +
164B ASP* 3.1 10.1 + - - +
166B SER* 1.3 78.4 - - - +
168B LEU* 1.3 56.9 + - - +
170B GLN* 4.2 4.3 - - - +
171B GLN* 3.0 41.0 + - + +
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Residues in contact with LEU 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B LEU* 4.4 7.2 - - + +
99B LEU* 3.9 19.2 - - + +
100B ILE* 3.6 42.4 - - + +
103B HIS* 5.8 2.5 - - + +
107B PHE* 3.8 28.0 - - + -
110B TYR* 6.3 0.7 - - + -
119B PHE* 4.7 4.0 - - + -
123B VAL* 3.9 36.3 - - + -
127B LEU* 4.4 3.3 - - + +
164B ASP* 3.1 14.5 + - + +
165B LEU* 3.6 10.5 - - + +
167B ILE* 1.3 78.1 - - - +
169B TYR* 1.3 59.0 + - - +
171B GLN* 3.9 2.4 - - - -
172B MET* 2.9 29.3 + - - +
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Residues in contact with TYR 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B LEU* 3.8 19.9 - - + +
130B PHE* 4.1 19.7 - + + -
131B LYS* 3.3 31.5 + - + +
135B LEU 2.9 29.0 + - - -
136B GLU* 3.8 2.7 - - - +
137B PRO* 3.6 31.3 - - + +
140B ILE* 3.7 22.7 - - + -
165B LEU 2.8 21.1 + - - +
166B SER* 3.8 5.8 - - - +
168B LEU* 1.3 70.8 - - - +
170B GLN* 1.3 66.8 + - - +
172B MET* 3.0 32.0 + - + +
173B GLU* 3.0 25.2 + - + +
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Residues in contact with GLN 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B PRO* 3.9 22.9 - - + +
141B ARG* 3.5 36.3 - - - +
166B SER 2.9 21.3 + - - +
167B ILE* 4.2 4.1 - - - +
169B TYR* 1.3 72.5 - - - +
171B GLN* 1.3 60.5 + - + +
173B GLU* 3.2 4.4 + - + +
174B LYS* 2.9 28.7 + - + +
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Residues in contact with GLN 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B LEU* 3.9 19.0 - - + +
103B HIS* 3.4 44.5 + - + +
167B ILE* 3.0 26.9 + - + +
168B LEU* 3.9 4.3 - - - +
170B GLN* 1.3 77.8 - - - +
172B MET* 1.3 62.8 + - - +
174B LYS* 3.3 32.9 + - - +
175B SER* 3.0 30.0 + - - -
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Residues in contact with MET 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B VAL* 3.6 28.3 - - - -
95B LEU* 3.7 17.3 - - + -
96B LEU* 4.1 12.8 - - + -
99B LEU* 3.6 14.8 - - + +
127B LEU* 4.2 14.6 - - + -
131B LYS* 4.4 6.1 - - - -
168B LEU 2.9 15.8 + - - +
169B TYR* 3.0 38.6 + - + +
171B GLN* 1.3 76.7 - - - +
173B GLU* 1.3 60.3 - - + +
175B SER* 3.0 4.2 + - - -
176B LEU* 2.9 36.6 + - + +
182B HIS* 3.8 26.2 - - + +
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Residues in contact with GLU 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B LYS* 2.4 40.2 + - - -
137B PRO* 3.9 23.1 - - + +
169B TYR* 3.0 21.9 + - + +
170B GLN* 3.2 7.6 + - + +
172B MET* 1.3 80.2 - - + +
174B LYS* 1.3 61.4 + - - +
176B LEU* 4.4 11.3 - - - +
177B ALA* 3.0 27.4 + - - +
182B HIS* 5.9 0.7 - - - +
185B ASP* 5.2 2.1 - - - +
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Residues in contact with LYS 174 (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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170B GLN* 2.9 14.3 + - + +
171B GLN* 3.4 37.1 + - - +
172B MET 3.1 0.2 - - - -
173B GLU* 1.3 79.3 - - - +
175B SER* 1.3 63.1 + - - +
176B LEU 3.4 0.5 + - - -
177B ALA* 3.6 13.7 + - - +
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Residues in contact with SER 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B LEU* 4.1 23.7 - - - +
98B LYS* 5.5 3.8 - - - -
99B LEU* 3.6 15.6 - - - +
171B GLN* 3.0 19.3 + - - -
172B MET* 3.0 5.4 + - - -
174B LYS* 1.3 77.9 - - - +
176B LEU* 1.3 62.7 + - - +
177B ALA 3.5 0.2 - - - -
179B GLN* 5.3 3.8 - - - +
180B TYR* 5.0 5.2 - - - -
554B MET* 5.8 1.1 - - - +
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Residues in contact with LEU 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B LEU* 3.6 32.3 - - + -
92B VAL* 5.5 1.3 - - + -
95B LEU* 3.7 18.2 - - + -
172B MET* 2.9 37.5 + - + +
173B GLU* 4.2 11.9 - - - +
175B SER* 1.3 80.5 - - - +
177B ALA* 1.3 67.7 + - - +
178B ASP 3.6 1.3 - - - -
179B GLN* 3.4 1.7 + - - -
180B TYR* 3.0 46.0 + - + +
182B HIS* 4.5 29.4 - - + +
554B MET* 3.8 9.0 - - + -
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Residues in contact with ALA 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B ARG* 3.0 24.8 + - - -
173B GLU* 3.0 19.3 + - - +
174B LYS* 3.6 12.8 + - - +
175B SER 3.5 2.0 - - - -
176B LEU* 1.3 78.9 - - - +
178B ASP* 1.3 61.9 + - + +
179B GLN 3.5 1.4 + - - -
180B TYR 4.0 1.7 - - - +
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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) + - + + + + + -
------------------------------------------------------------
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