Contacts of the helix formed by residues 133 - 158 (chain X) in PDB entry 2ZG8
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 PHE 133 (chain X).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23X TYR* 3.2 31.2 - + - -
61X GLY* 3.4 41.1 - - - -
64X ARG* 3.9 8.7 - - + -
65X LEU* 3.6 16.8 - - + -
110X LEU* 3.6 25.1 - - + -
128X PHE* 3.6 30.7 - + - -
129X LEU* 3.0 19.2 + - + +
131X SER 3.5 1.2 - - - -
132X HIS* 1.3 102.8 - - + +
134X LEU* 1.3 60.2 + - - +
135X ASP 3.4 1.3 - - - -
136X GLU* 3.3 5.7 + - - +
137X GLU* 2.9 34.1 + - - +
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Residues in contact with LEU 134 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107X ASN* 3.6 22.4 - - - +
110X LEU* 3.7 21.8 - - + +
111X LEU* 3.6 26.0 - - + -
114X HIS* 4.0 27.1 - - + -
129X LEU* 2.8 20.5 + - + +
130X GLU* 3.1 47.7 + - - +
133X PHE* 1.3 73.7 - - - +
135X ASP* 1.3 61.5 + - - +
137X GLU* 3.4 3.1 + - - +
138X VAL* 3.2 27.1 + - - +
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Residues in contact with ASP 135 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130X GLU* 3.2 24.0 + - + +
131X SER* 5.1 4.9 - - - +
134X LEU* 1.3 76.1 - - - +
136X GLU* 1.3 63.6 + - + +
138X VAL* 3.3 11.5 + - - +
139X LYS* 2.7 53.2 + - - +
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Residues in contact with GLU 136 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131X SER 4.7 6.2 + - - +
132X HIS* 3.6 24.9 - - - +
133X PHE* 3.3 7.1 + - - +
134X LEU 3.3 0.2 - - - -
135X ASP* 1.3 78.3 - - + +
137X GLU* 1.3 61.3 + - - +
139X LYS* 3.4 21.0 + - - +
140X LEU* 2.8 32.3 + - - +
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Residues in contact with GLU 137 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23X TYR* 4.0 8.9 + - - +
58X LYS* 2.8 26.3 + - - -
103X GLU* 2.6 42.6 - - - +
106X LEU* 4.6 4.0 - - - -
107X ASN* 3.4 26.0 - - + +
110X LEU* 3.6 20.6 - - + -
133X PHE 2.9 20.3 + - - +
134X LEU 3.7 1.6 - - - +
135X ASP 3.3 0.2 - - - -
136X GLU* 1.3 78.8 - - - +
138X VAL* 1.3 57.6 + - - +
140X LEU* 3.2 3.8 + - - +
141X ILE* 2.8 39.2 + - + +
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Residues in contact with VAL 138 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107X ASN* 5.1 10.8 - - - +
134X LEU 3.2 14.0 + - - +
135X ASP* 3.3 14.8 + - - +
137X GLU* 1.3 76.0 - - - +
139X LYS* 1.3 65.0 + - + +
141X ILE* 3.4 5.0 + - - +
142X LYS* 3.0 24.8 + - + +
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Residues in contact with LYS 139 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135X ASP* 2.7 50.9 + - - +
136X GLU* 3.7 23.8 - - - +
138X VAL* 1.3 77.6 - - + +
140X LEU* 1.3 62.8 + - - +
142X LYS* 3.4 7.6 + - - +
143X LYS* 3.0 22.9 + - - +
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Residues in contact with LEU 140 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50X PHE* 5.2 3.4 - - + -
54X LEU* 3.7 33.0 - - + -
57X GLU* 4.6 7.9 - - - +
58X LYS* 3.9 9.0 - - - +
103X GLU* 3.4 35.0 - - + +
136X GLU 2.8 18.1 + - - +
137X GLU* 3.8 4.9 - - - +
139X LYS* 1.3 78.3 - - - +
141X ILE* 1.3 57.7 + - + +
143X LYS* 3.2 18.2 + - + +
144X MET* 2.9 44.5 + - + +
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Residues in contact with ILE 141 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100X ILE* 4.8 16.8 - - + +
103X GLU* 3.7 37.0 - - + +
104X LYS* 4.2 18.4 - - + +
107X ASN* 4.2 19.7 - - + +
137X GLU* 2.8 34.6 + - - +
138X VAL* 4.0 4.9 - - - +
140X LEU* 1.3 74.8 - - - +
142X LYS* 1.3 58.0 + - - +
144X MET* 3.3 7.2 + - - +
145X GLY* 2.9 27.1 + - - -
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Residues in contact with LYS 142 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138X VAL* 3.0 19.7 + - + +
139X LYS* 3.7 7.2 - - - +
140X LEU 3.3 0.2 - - - -
141X ILE* 1.3 76.6 - - - +
143X LYS* 1.3 56.0 + - - +
145X GLY* 3.3 1.8 + - - -
146X ASP* 2.9 68.3 + - - +
180X SO4 5.5 0.4 - - - +
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Residues in contact with LYS 143 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50X PHE* 4.5 12.3 - - + -
139X LYS 3.0 13.2 + - - +
140X LEU* 3.2 19.7 + - + +
142X LYS* 1.3 76.7 - - - +
144X MET* 1.3 57.4 + - - +
146X ASP* 3.2 3.3 + - - +
147X HIS* 2.8 54.5 + - + +
180X SO4 3.6 23.6 - - - +
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Residues in contact with MET 144 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30X TYR* 3.4 24.7 - - - +
50X PHE* 4.3 9.2 - - + -
54X LEU* 3.5 25.4 - - + -
96X MET* 3.7 15.1 - - - +
99X ALA* 3.8 26.5 - - + +
100X ILE* 3.6 19.5 - - + -
103X GLU* 3.7 24.0 - - + -
140X LEU* 2.9 30.8 + - + +
141X ILE* 3.7 5.4 - - - +
143X LYS* 1.3 76.1 - - - +
145X GLY* 1.3 58.3 + - - +
147X HIS* 3.3 7.7 + - - +
148X LEU* 2.8 30.5 + - - +
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Residues in contact with GLY 145 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100X ILE* 4.0 12.2 - - - +
141X ILE 2.9 15.3 + - - -
142X LYS* 3.7 3.6 - - - -
144X MET* 1.3 75.0 - - - +
146X ASP* 1.3 58.2 + - - +
148X LEU* 3.3 4.0 + - - +
149X THR* 2.9 34.1 + - - -
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Residues in contact with ASP 146 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142X LYS* 2.9 54.4 + - - +
143X LYS 3.4 3.4 - - - +
145X GLY* 1.3 75.4 - - - +
147X HIS* 1.3 63.0 + - - +
149X THR* 3.3 7.3 + - - -
150X ASN* 2.9 30.6 + - - +
180X SO4 2.6 41.6 + - - +
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Residues in contact with HIS 147 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50X PHE* 3.7 26.6 - + - -
96X MET* 4.1 14.5 - - + +
143X LYS* 2.8 36.3 + - + +
144X MET 3.5 4.5 - - - +
146X ASP* 1.3 78.4 - - - +
148X LEU* 1.3 58.3 + - - +
150X ASN* 3.1 4.9 + - - +
151X ILE* 2.9 32.7 + - - +
166X PHE* 3.7 15.7 - + + -
170X THR* 3.7 26.5 - - + +
171X LEU* 3.7 22.2 - - + +
180X SO4 3.3 25.0 + - - -
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Residues in contact with LEU 148 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93X PRO* 3.9 21.8 - - + +
96X MET* 4.0 10.9 - - + +
97X LYS* 3.8 32.1 - - + -
100X ILE* 3.7 21.8 - - + -
144X MET 2.8 20.8 + - - +
145X GLY* 3.7 4.9 - - - +
147X HIS* 1.3 71.7 - - - +
149X THR* 1.3 58.6 + - - +
151X ILE* 3.4 4.7 - - + +
152X GLN* 2.9 64.5 + - + +
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Residues in contact with THR 149 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145X GLY 2.9 18.8 + - - -
146X ASP* 3.6 7.6 - - - +
148X LEU* 1.3 75.8 - - - +
150X ASN* 1.3 58.6 + - - +
152X GLN* 3.4 13.5 + - - +
153X ARG* 3.0 51.4 + - + +
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Residues in contact with ASN 150 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146X ASP* 2.9 25.8 + - - +
147X HIS* 3.6 7.9 - - - +
149X THR* 1.3 74.2 - - - +
151X ILE* 1.3 65.0 + - - +
153X ARG* 2.9 34.4 + - - +
154X LEU* 3.0 31.1 + - + +
166X PHE* 3.7 18.8 - - + -
170X THR* 5.2 5.2 + - - +
180X SO4 4.8 5.5 + - - -
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Residues in contact with ILE 151 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92X THR* 4.2 11.4 - - + +
93X PRO* 3.8 40.4 - - + -
96X MET* 5.0 3.4 - - + -
147X HIS 2.9 20.0 + - - +
148X LEU* 3.4 21.5 - - + +
150X ASN* 1.3 73.7 - - - +
152X GLN* 1.3 57.5 + - - +
154X LEU* 3.1 3.8 + - + +
155X VAL* 2.9 40.0 + - + +
162X GLY 3.8 2.9 - - - +
163X GLU* 3.8 25.8 - - + -
166X PHE* 3.6 40.3 - - + -
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Residues in contact with GLN 152 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93X PRO* 4.9 5.8 - - + -
97X LYS* 3.8 18.6 + - - +
148X LEU* 2.9 58.8 + - + +
149X THR* 3.8 12.1 + - - +
151X ILE* 1.3 76.1 - - + +
153X ARG* 1.3 62.0 + - - +
155X VAL* 3.8 9.9 - - + +
156X GLY* 3.1 21.1 + - - -
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Residues in contact with ARG 153 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149X THR* 3.0 34.6 + - - +
150X ASN* 2.9 46.7 + - - +
152X GLN* 1.3 77.8 - - - +
154X LEU* 1.3 63.8 + - + +
156X GLY* 3.8 1.4 + - - -
157X SER* 3.8 17.2 + - - -
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Residues in contact with LEU 154 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150X ASN* 3.0 21.4 + - + +
151X ILE* 3.5 6.5 - - - +
153X ARG* 1.3 79.8 - - + +
155X VAL* 1.3 58.4 + - - +
157X SER* 3.2 10.0 + - - -
158X GLN* 3.2 25.8 + - - +
162X GLY* 3.7 34.5 - - - +
165X LEU* 4.5 18.2 - - + -
166X PHE* 3.7 30.3 - - + +
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Residues in contact with VAL 155 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93X PRO* 4.0 17.9 - - + -
151X ILE* 2.9 36.3 + - + +
152X GLN* 3.8 11.4 - - + +
154X LEU* 1.3 69.6 - - - +
156X GLY* 1.3 65.6 + - - +
157X SER 3.2 2.4 + - - -
158X GLN 3.8 6.4 + - - -
159X ALA* 3.8 32.4 + - + +
163X GLU* 3.8 32.5 - - + +
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Residues in contact with GLY 156 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152X GLN 3.1 17.3 + - - -
153X ARG 3.8 2.7 + - - -
154X LEU 3.2 0.2 - - - -
155X VAL* 1.3 78.8 - - - +
157X SER* 1.3 60.3 + - - +
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Residues in contact with SER 157 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153X ARG 3.8 11.0 + - - -
154X LEU* 3.2 11.9 + - - -
155X VAL 3.2 1.5 - - - -
156X GLY* 1.3 80.6 - - - +
158X GLN* 1.3 75.1 + - - +
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Residues in contact with GLN 158 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154X LEU 3.2 5.7 + - - +
155X VAL 3.8 1.1 + - - -
157X SER* 1.3 90.9 + - - +
159X ALA* 1.3 56.1 + - - +
160X GLY 3.6 1.1 - - - +
161X LEU* 3.8 35.3 - - + +
162X GLY* 2.7 34.8 + - - -
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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