Contacts of the helix formed by residues 137 - 160 (chain A) in PDB entry 5JJ2
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 ASN 137 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135A LEU 3.7 0.4 - - - -
136A LEU* 1.3 78.3 - - - +
138A GLU* 1.3 64.5 + - - +
139A ASP* 3.3 12.4 + - - +
140A GLU* 2.8 39.5 + - - +
141A VAL* 3.0 27.0 + - - +
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Residues in contact with GLU 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A ASN* 1.3 74.9 - - - +
139A ASP* 1.3 64.0 + - - +
141A VAL* 3.3 8.0 + - - +
142A ASN* 2.9 40.1 + - - +
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Residues in contact with ASP 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137A ASN* 3.3 14.6 + - - +
138A GLU* 1.3 78.9 - - - +
140A GLU* 1.3 58.3 + - - +
142A ASN* 3.2 12.1 + - - +
143A ILE* 2.9 52.2 + - - +
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Residues in contact with GLU 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79A LYS* 4.1 18.0 + - - -
134A GLN* 3.9 6.8 + - - +
135A LEU* 3.6 22.7 - - + +
136A LEU* 2.8 46.0 + - - +
137A ASN* 2.8 26.3 + - - +
139A ASP* 1.3 73.1 - - - +
141A VAL* 1.3 65.1 + - - +
143A ILE* 3.2 16.1 + - + +
144A GLY 2.9 18.2 + - - -
207A GLY 5.4 4.0 - - - +
208A ILE* 5.0 6.7 - - + +
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Residues in contact with VAL 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A TYR* 3.8 22.9 - - + +
135A LEU* 3.9 26.2 - - + +
137A ASN 3.0 19.9 + - - +
138A GLU* 3.7 9.6 - - - +
140A GLU* 1.3 75.2 - - - +
142A ASN* 1.3 61.1 + - - +
144A GLY* 3.1 2.9 + - - -
145A ILE* 2.9 37.6 + - + +
262A LEU* 4.5 1.4 - - + +
267A LYS* 5.8 1.1 - - - +
278A GLU* 3.8 33.7 - - + +
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Residues in contact with ASN 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A GLU* 2.9 39.9 + - - +
139A ASP* 3.2 13.5 + - - +
141A VAL* 1.3 77.7 - - - +
143A ILE* 1.3 57.3 + - + +
145A ILE* 3.4 19.3 + - - +
146A ASP* 3.0 36.2 + - - +
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Residues in contact with ILE 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A ASP* 2.9 41.8 + - - +
140A GLU* 3.6 14.6 - - + +
141A VAL 3.2 0.4 - - - -
142A ASN* 1.3 72.4 - - + +
144A GLY* 1.3 60.7 + - - +
146A ASP* 3.3 12.9 + - - +
147A ALA* 2.9 27.2 + - - +
206A LYS* 3.7 43.6 - - + +
208A ILE* 3.9 12.1 - - + -
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Residues in contact with GLY 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135A LEU* 4.5 6.3 - - - -
140A GLU 2.9 14.8 + - - -
141A VAL 3.1 3.3 + - - -
143A ILE* 1.3 74.9 - - - +
145A ILE* 1.3 64.9 + - - +
147A ALA* 3.3 2.8 + - - +
148A LEU* 3.0 21.7 + - - +
203A PHE* 3.7 11.8 - - - -
208A ILE* 4.0 15.7 - - - +
262A LEU* 3.8 14.5 - - - +
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Residues in contact with ILE 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A VAL* 2.9 27.9 + - + +
142A ASN* 3.5 24.0 - - - +
144A GLY* 1.3 74.1 - - - +
146A ASP* 1.3 66.7 + - - +
148A LEU* 3.2 6.0 + - - +
149A LEU* 3.0 35.1 + - + +
262A LEU* 4.0 13.2 - - + -
278A GLU* 3.9 20.4 - - + +
279A SER* 3.8 29.3 + - - +
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Residues in contact with ASP 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A ASN* 3.0 22.7 + - - +
143A ILE* 3.5 15.8 - - - +
145A ILE* 1.3 81.1 - - - +
147A ALA* 1.3 57.7 + - - +
149A LEU* 3.3 10.7 + - - +
150A GLU* 2.9 48.9 + - - +
206A LYS* 4.0 9.4 + - - +
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Residues in contact with ALA 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143A ILE 2.9 13.4 + - - +
144A GLY* 3.7 2.0 - - - +
146A ASP* 1.3 77.0 - - - +
148A LEU* 1.3 61.2 + - - +
150A GLU* 3.4 6.2 + - - +
151A LEU* 3.0 22.2 + - - +
202A THR* 5.0 4.6 + - - +
203A PHE* 3.5 39.5 - - + -
206A LYS* 3.5 28.4 - - + +
208A ILE* 4.7 0.9 - - + -
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Residues in contact with LEU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A LEU* 4.0 18.2 - - + -
144A GLY 3.0 14.1 + - - +
145A ILE* 3.2 8.5 + - - +
147A ALA* 1.3 73.4 - - - +
149A LEU* 1.3 66.6 + - + +
151A LEU* 3.0 27.7 + - + +
152A LYS 3.7 3.5 + - - -
203A PHE* 3.5 8.2 - - + -
260A ILE* 3.8 28.9 - - + +
261A ASP 4.1 0.7 - - - -
262A LEU* 3.8 30.1 - - + +
279A SER* 4.1 4.5 - - - +
280A SER* 4.0 15.9 - - - +
281A ILE* 3.7 29.4 - - + +
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A ILE* 3.0 32.2 + - + +
146A ASP* 3.7 11.9 - - - +
148A LEU* 1.3 76.5 - - + +
150A GLU* 1.3 63.9 + - + +
151A LEU 3.3 0.7 + - - -
152A LYS* 3.4 16.6 + - - +
153A PRO* 3.8 4.0 - - - +
279A SER* 4.5 8.1 - - - +
280A SER 4.5 7.9 - - - +
281A ILE* 3.8 22.0 - - + -
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Residues in contact with GLU 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A ASP* 2.9 28.5 + - - +
147A ALA* 3.8 4.6 - - - +
149A LEU* 1.3 77.1 - - + +
151A LEU* 1.3 62.1 + - - +
152A LYS 3.3 0.4 - - - -
153A PRO* 3.3 13.5 - - - +
154A PHE* 3.3 24.3 - - + -
206A LYS* 2.9 36.6 + - - +
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Residues in contact with LEU 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A LEU* 4.3 8.7 - - + -
130A LEU* 6.1 0.9 - - + -
147A ALA 3.0 13.8 + - - +
148A LEU* 3.0 29.0 + - + +
150A GLU* 1.3 77.3 - - - +
152A LYS* 1.3 64.2 + - - +
154A PHE* 3.1 21.3 + - + +
155A ILE* 3.2 34.7 + - + +
195A ILE* 4.8 5.4 - - + +
198A THR* 4.0 28.7 - - + -
199A ALA* 4.1 31.6 - - + +
202A THR* 4.3 8.3 - - - +
203A PHE* 4.7 2.9 - - + -
260A ILE* 5.1 3.6 - - + -
281A ILE* 4.8 1.1 - - + -
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Residues in contact with LYS 152 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148A LEU 3.7 2.4 + - - -
149A LEU 3.4 10.6 + - - +
150A GLU 3.3 0.2 - - - -
151A LEU* 1.3 77.3 - - - +
153A PRO* 1.3 71.4 - - + +
155A ILE* 3.1 4.6 + - - +
156A GLU* 3.0 48.3 + - + +
281A ILE* 4.0 27.1 - - + +
282A VAL* 2.9 32.3 + - - +
283A ILE* 4.2 9.6 - - + -
285A GLU* 2.9 27.6 + - - -
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Residues in contact with PRO 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A LEU 3.8 4.5 - - - +
150A GLU* 3.3 21.5 - - - +
152A LYS* 1.3 95.0 - - + +
154A PHE* 1.3 59.4 + - + +
156A GLU* 3.9 7.9 - - + +
157A GLU* 3.0 36.5 + - + +
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Residues in contact with PHE 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A GLU* 3.3 30.7 - - + -
151A LEU* 3.1 16.5 + - + +
153A PRO* 1.3 81.8 - - + +
155A ILE* 1.3 62.7 + - + +
157A GLU* 3.4 7.0 + - - +
158A LEU* 3.2 21.0 + - - +
198A THR* 4.1 26.0 - - + -
201A ARG* 4.4 13.7 - - - -
202A THR* 4.7 15.3 - - + -
306A MLI 5.0 17.3 - - + -
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Residues in contact with ILE 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A LEU* 3.2 32.5 + - + +
152A LYS 3.1 7.2 + - - +
154A PHE* 1.3 77.8 - - + +
156A GLU* 1.3 63.1 + - - +
158A LEU* 3.1 7.7 + - - +
159A LEU* 3.0 42.8 + - + +
195A ILE* 3.9 36.3 - - + -
257A LEU* 4.2 2.0 - - + -
260A ILE* 3.7 29.8 - - + -
281A ILE* 4.6 2.2 - - + -
283A ILE* 3.8 27.1 - - + -
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Residues in contact with GLU 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A LYS* 3.0 49.0 + - + +
153A PRO* 3.9 7.2 - - + +
155A ILE* 1.3 75.9 - - - +
157A GLU* 1.3 58.6 + - + +
159A LEU* 4.6 2.9 - - - +
160A GLN* 2.9 30.8 + - - +
161A GLY* 4.4 10.7 + - - -
283A ILE* 3.7 11.2 - - + +
284A GLY* 2.9 36.4 + - - -
285A GLU* 4.0 1.7 - - - +
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Residues in contact with GLU 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A PRO* 3.0 21.9 + - + +
154A PHE* 3.8 6.5 - - - +
155A ILE 3.2 0.2 - - - -
156A GLU* 1.3 76.3 - - + +
158A LEU* 1.3 62.2 + - - +
160A GLN* 2.8 36.1 + - - +
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Residues in contact with LEU 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A PHE 3.2 12.2 + - - +
155A ILE* 3.1 9.7 + - - +
157A GLU* 1.3 79.1 - - - +
159A LEU* 1.3 71.4 + - + +
160A GLN* 4.3 4.3 - - - +
191A SER* 3.7 20.2 - - - +
194A GLU* 3.2 32.5 - - + +
195A ILE* 3.6 33.7 - - + +
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Residues in contact with LEU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A ILE* 3.0 37.5 + - + +
156A GLU* 4.5 2.9 - - - +
158A LEU* 1.3 93.0 - - + +
160A GLN* 1.3 71.7 + - - +
161A GLY* 3.2 3.8 + - - +
162A LYS* 3.2 34.0 + - - +
163A HIS 5.6 0.2 - - - -
164A LEU* 4.0 42.8 - - + +
191A SER* 4.8 5.8 - - - +
195A ILE* 4.7 0.9 - - + -
257A LEU* 4.1 11.9 - - + +
283A ILE* 4.2 11.4 - - + -
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Residues in contact with GLN 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A GLU 2.9 13.9 + - - -
157A GLU* 2.8 46.2 + - - +
158A LEU 4.3 3.6 - - - +
159A LEU* 1.3 78.0 - - - +
161A GLY* 1.3 56.7 + - - +
162A LYS* 3.3 6.1 + - - +
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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
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Atomic class I II III IV V VI VII VIII
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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