Contacts of the helix formed by residues 131 - 152 (chain B) in PDB entry 2HXI
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 GLU 131 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B LEU* 4.4 2.1 - - + +
128B PRO* 2.8 36.0 + - + +
130B ASP* 1.4 91.3 - - - +
132B ILE* 1.3 64.9 + - + +
133B PRO 3.4 1.3 - - - -
134B ALA* 3.1 10.6 + - - +
135B ARG* 3.0 62.9 + - + +
215B ALA 5.7 0.2 - - - +
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Residues in contact with ILE 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A PHE* 3.9 12.8 - - + -
119B LEU* 3.6 28.0 - - + +
122B LEU* 3.9 20.4 - - + -
123B ARG* 3.7 39.3 - - + +
127B LEU* 3.8 28.9 - - + +
128B PRO 3.6 7.4 - - - +
129B ASP* 3.0 21.7 + - - +
131B GLU* 1.3 77.7 - - - +
133B PRO* 1.3 59.4 - - + +
135B ARG* 3.2 4.1 + - - +
136B TYR* 2.7 29.6 + - - +
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Residues in contact with PRO 133 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A PHE* 3.6 24.9 - - + -
189A GLU* 3.7 46.7 - - + +
190A ILE* 4.4 10.5 - - + +
129B ASP 3.3 13.7 - - - +
130B ASP 3.7 7.2 - - - +
131B GLU 3.6 3.4 - - - -
132B ILE* 1.3 91.8 - - + +
134B ALA* 1.3 56.6 + - - +
136B TYR* 3.5 8.6 + - + +
137B HIS* 2.9 29.3 + - - +
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Residues in contact with ALA 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B ASP 5.4 0.6 + - - +
131B GLU* 3.1 11.6 + - - +
133B PRO* 1.3 78.9 - - - +
135B ARG* 1.3 63.0 + - - +
137B HIS* 3.2 8.3 + - - +
138B ARG* 3.2 45.7 + - - +
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Residues in contact with ARG 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B LEU* 4.4 10.3 - - + -
127B LEU* 4.1 17.8 - - + +
131B GLU* 3.0 50.7 + - + +
132B ILE* 3.6 8.3 - - - +
134B ALA* 1.3 73.6 - - + +
136B TYR* 1.3 64.4 + - - +
138B ARG* 3.5 26.0 + - - +
139B LEU* 3.0 25.4 + - - +
208B HIS* 5.1 1.9 + - - -
211B HIS* 3.6 31.7 + - - -
212B LEU* 3.7 24.7 - - + +
215B ALA* 3.5 27.6 + - - +
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Residues in contact with TYR 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A ILE* 3.7 30.5 - - + -
191A ARG 5.5 1.1 - - - -
114B MSE 3.8 7.8 - - - +
115B MSE 3.1 40.7 - - + +
118B VAL* 3.6 28.7 - - + -
119B LEU* 4.0 20.6 - - + -
122B LEU* 3.8 14.8 - - + +
132B ILE 2.7 22.1 + - - +
133B PRO* 3.5 6.7 - - + +
135B ARG* 1.3 72.2 - - - +
137B HIS* 1.3 70.7 + - + +
139B LEU* 3.1 5.4 + - - +
140B VAL* 3.0 53.8 + - + +
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Residues in contact with HIS 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190A ILE* 6.3 0.2 - - + -
191A ARG* 4.2 25.8 + - + +
192A PRO 3.4 22.4 + - - -
193A LEU* 4.0 7.3 - - - -
195A ALA* 2.8 30.8 + - - +
196A ASP* 4.1 17.7 - - + +
200A ALA* 4.9 3.6 - - + -
133B PRO 2.9 20.3 + - - +
134B ALA* 3.2 9.4 + - - +
136B TYR* 1.3 84.9 - - + +
138B ARG* 1.3 60.3 + - + +
140B VAL* 4.0 1.4 - - - +
141B ILE* 2.9 59.2 + - + +
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Residues in contact with ARG 138 (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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200A ALA* 4.3 15.0 - - + -
203A GLU* 2.6 64.5 + - - +
204A ILE* 3.4 23.9 - - + +
134B ALA* 3.2 31.2 + - - +
135B ARG* 3.9 38.8 - - - +
137B HIS* 1.3 80.9 - - + +
139B LEU* 1.3 60.5 + - - +
141B ILE* 3.5 2.9 + - - -
142B LEU* 2.9 30.5 + - - +
208B HIS* 4.5 10.6 - - + +
211B HIS* 5.1 9.7 + - - -
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Residues in contact with LEU 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B LEU* 4.0 27.6 - - + -
118B VAL* 3.9 26.9 - - + -
122B LEU* 4.8 4.7 - - + -
135B ARG 3.0 18.5 + - - +
136B TYR 3.1 4.5 + - - +
138B ARG* 1.3 76.6 - - - +
140B VAL* 1.3 60.4 + - + +
142B LEU* 3.3 4.3 + - + +
143B ILE* 3.0 48.4 + - + +
205B LEU* 4.1 9.4 - - + -
208B HIS* 3.8 30.2 + - + +
209B LEU* 4.0 14.8 - - + -
212B LEU* 4.8 6.5 - - + -
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Residues in contact with VAL 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A LEU* 3.7 27.6 - - + -
101B TRP* 4.4 15.0 - - + -
114B MSE 4.5 13.9 - - + -
118B VAL* 4.9 6.3 - - + -
136B TYR* 3.0 58.5 + - + +
137B HIS* 4.3 1.8 - - - +
139B LEU* 1.3 79.1 - - + +
141B ILE* 1.3 62.7 + - - +
143B ILE* 4.4 9.2 - - + +
144B SER* 2.8 28.4 + - - -
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Residues in contact with ILE 141 (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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146A LEU* 4.0 4.0 - - + -
193A LEU* 3.8 22.2 - - + +
195A ALA 4.2 0.2 - - - +
197A ARG* 3.7 36.3 - - - +
200A ALA* 3.5 24.5 - - + -
204A ILE* 3.7 17.0 - - + -
137B HIS* 2.9 53.2 + - + +
138B ARG 3.7 3.8 - - - +
140B VAL* 1.3 77.2 - - - +
142B LEU* 1.3 61.5 + - - +
144B SER* 3.6 5.8 - - - -
145B SER* 2.8 32.3 + - - +
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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
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142A LEU* 3.4 33.2 - - + -
146A LEU* 4.6 2.7 - - + -
204A ILE* 4.0 15.9 - - + +
138B ARG 2.9 22.2 + - - +
139B LEU* 3.4 5.4 - - + +
140B VAL 3.2 0.2 - - - -
141B ILE* 1.3 74.4 - - - +
143B ILE* 1.3 64.3 + - + +
145B SER* 3.6 3.3 - - - -
146B LEU* 3.0 46.9 + - + +
204B ILE* 3.8 11.9 - - + +
205B LEU* 4.8 11.4 - - + -
208B HIS* 3.5 44.2 - - + +
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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
----------------------------------------------------------
80B LEU 5.1 2.9 - - - +
83B VAL* 6.0 1.8 - - + -
84B ALA* 3.8 27.8 - - + +
87B LEU* 4.2 21.5 - - + -
101B TRP* 4.6 2.5 - - + -
118B VAL* 6.1 3.4 - - + -
139B LEU* 3.0 39.0 + - + +
140B VAL* 4.0 9.9 - - + +
142B LEU* 1.3 75.3 - - + +
144B SER* 1.3 59.5 + - - +
146B LEU* 3.3 4.6 + - - +
147B ILE* 3.0 54.5 + - + +
201B PHE* 4.2 17.2 - - + -
205B LEU* 4.2 13.9 - - + -
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Residues in contact with SER 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193A LEU* 3.6 27.6 - - - +
197A ARG* 5.0 0.9 + - - -
101B TRP* 3.6 34.3 - - - -
102B GLY* 4.2 8.9 + - - -
140B VAL 2.8 22.3 + - - -
141B ILE* 3.3 5.5 + - - -
143B ILE* 1.3 75.4 - - - +
145B SER* 1.3 63.3 + - - +
147B ILE* 3.2 1.3 + - - +
148B THR* 2.8 37.1 + - - +
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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
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145A SER* 3.8 16.2 - - - +
146A LEU* 3.7 14.5 - - - +
149A ALA* 3.2 17.9 - - - +
197A ARG* 3.0 29.3 + - - -
141B ILE* 2.8 24.3 + - - +
142B LEU 3.6 3.6 - - - -
144B SER* 1.3 77.0 + - - +
146B LEU* 1.3 62.1 - - - +
148B THR* 3.2 2.8 + - - -
149B ALA* 3.1 25.5 + - - +
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Residues in contact with LEU 146 (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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141A ILE* 4.1 18.2 - - + +
142A LEU* 4.6 5.6 - - + -
145A SER* 3.5 25.9 + - - +
142B LEU* 3.0 43.7 + - + +
143B ILE* 3.7 5.2 - - + +
145B SER* 1.3 77.3 - - - +
147B ILE* 1.3 61.8 + - - +
149B ALA* 3.5 1.9 + - - +
150B GLU* 3.1 26.9 + - - +
197B ARG* 4.8 1.6 + - - +
201B PHE* 3.9 35.9 - - + +
204B ILE* 3.8 27.8 - - + -
205B LEU* 5.1 3.8 - - + +
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Residues in contact with ILE 147 (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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87B LEU* 3.8 10.5 - - + +
88B ARG* 3.6 39.0 - - + +
91B PHE* 3.7 32.1 - - + -
98B ALA* 4.2 10.7 - - + +
101B TRP* 4.1 12.1 - - + -
143B ILE* 3.0 40.8 + - + +
144B SER* 3.2 5.1 + - - +
146B LEU* 1.3 73.9 - - - +
148B THR* 1.3 65.5 + - + +
150B GLU* 3.4 14.4 + - - +
151B GLY* 3.5 9.5 + - - -
201B PHE* 4.0 13.7 - - + -
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Residues in contact with THR 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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148A THR* 5.3 3.9 - - - +
149A ALA* 3.7 19.4 + - - +
98B ALA* 2.9 36.1 - - + +
99B ALA* 4.1 11.1 - - - +
101B TRP* 5.3 0.9 - - + -
102B GLY* 3.5 20.2 - - - -
144B SER* 2.8 23.2 + - - +
145B SER 3.2 9.2 + - - -
147B ILE* 1.3 73.7 - - + +
149B ALA* 1.3 64.4 + - - +
150B GLU 3.4 0.3 + - - -
151B GLY* 3.4 7.8 + - - -
152B GLY* 3.4 16.1 + - - +
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Residues in contact with ALA 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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102A GLY* 6.1 1.8 - - - -
103A ARG* 5.6 6.2 - - - +
145A SER* 3.3 37.9 - - - +
148A THR* 4.8 15.7 - - + -
145B SER 3.1 15.3 + - - +
146B LEU 3.9 1.1 - - - +
148B THR* 1.3 78.6 + - - +
150B GLU* 1.3 63.1 + - - +
151B GLY 3.4 0.7 + - - -
152B GLY* 3.8 6.9 + - - -
197B ARG* 3.6 12.5 + - - +
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Residues in contact with GLU 150 (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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88B ARG* 2.5 51.4 + - - +
146B LEU 3.1 18.8 + - - +
147B ILE* 3.9 7.0 - - - +
148B THR 3.3 0.6 - - - -
149B ALA* 1.3 77.3 - - - +
151B GLY* 1.3 60.2 + - - +
152B GLY 3.9 0.2 + - - -
197B ARG* 3.6 44.5 - - + +
201B PHE* 5.1 3.6 - - - +
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Residues in contact with GLY 151 (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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95B PRO* 3.6 24.7 - - - +
98B ALA* 6.0 2.0 - - - -
147B ILE 3.5 6.8 + - - -
148B THR 3.4 4.5 + - - -
149B ALA 3.3 0.4 - - - -
150B GLU* 1.3 81.6 - - - +
152B GLY* 1.3 63.8 + - - +
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Residues in contact with GLY 152 (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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99A ALA* 6.3 2.7 - - - -
103A ARG* 5.7 8.7 - - - -
95B PRO* 4.1 17.8 - - - +
96B GLN* 5.8 0.2 - - - -
99B ALA* 4.6 9.9 - - - +
148B THR 3.4 14.9 + - - +
149B ALA 3.8 5.1 + - - -
150B GLU 3.6 2.4 - - - -
151B GLY* 1.3 80.8 - - - +
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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