Contacts of the helix formed by residues 147 - 168 (chain A) in PDB entry 3N51
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 SER 147 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A PHE* 1.3 77.6 - - - +
148A GLU* 1.3 63.2 + - - +
149A VAL* 3.1 20.8 + - - +
150A ASP* 2.9 21.7 + - - +
151A ALA* 3.1 20.3 + - - +
320A VAL* 3.8 28.9 - - - +
321A PRO 4.0 16.6 - - - -
322A SER* 5.0 0.2 - - - -
323A LEU* 4.1 8.1 - - - -
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Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A SER* 1.3 72.8 - - - +
149A VAL* 1.3 55.7 + - - +
151A ALA* 3.3 1.9 + - - +
152A ALA* 2.7 37.4 + - - +
244A LEU* 3.9 22.0 - - + -
276A LYS 3.6 6.1 - - - +
277A VAL* 3.5 11.6 - - + -
278A SER* 3.0 48.2 + - - -
281A ALA* 3.8 2.9 - - - +
307A TRP* 3.1 19.0 + - + -
311A TYR* 3.7 27.1 + - + -
319A ASP 5.9 0.9 - - - +
320A VAL* 5.6 0.6 - - - +
321A PRO* 5.0 1.8 + - - +
323A LEU* 4.1 11.9 - - + +
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Residues in contact with VAL 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A SER* 3.1 6.8 + - - +
148A GLU* 1.3 77.3 - - + +
150A ASP* 1.3 64.1 + - - +
152A ALA* 3.3 1.0 + - - +
153A ARG* 3.0 57.8 + - - +
311A TYR* 3.2 40.4 - - + +
313A LYS 5.3 0.2 - - - +
316A ILE* 4.1 19.5 - - + -
318A VAL* 5.4 3.8 - - + +
319A ASP 5.2 0.2 - - - +
320A VAL* 3.3 27.6 - - + -
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Residues in contact with ASP 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ARG* 3.8 16.7 + - - +
145A ARG* 4.3 18.2 + - - +
146A PHE* 3.5 26.4 + - + -
147A SER* 2.9 32.7 + - - +
149A VAL* 1.3 78.3 - - - +
151A ALA* 1.3 63.0 + - - +
153A ARG* 3.4 15.9 + - - +
154A ILE* 3.2 29.8 + - - +
187A LYS* 5.3 6.1 + - - +
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Residues in contact with ALA 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A PHE* 3.8 18.4 - - + -
147A SER 3.1 10.9 + - - +
148A GLU 3.5 7.2 - - - +
150A ASP* 1.3 75.9 - - - +
152A ALA* 1.3 62.1 + - - +
154A ILE* 3.4 2.5 + - - +
155A ILE* 3.0 27.4 + - - +
240A LEU* 4.5 0.4 - - + -
243A LEU* 4.2 17.0 - - + -
244A LEU* 3.7 27.8 - - + -
307A TRP* 3.9 7.4 - - + -
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Residues in contact with ALA 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A GLU 2.7 20.4 + - - +
149A VAL 3.7 3.4 - - - +
151A ALA* 1.3 73.1 - - - +
153A ARG* 1.3 53.4 + - - +
155A ILE* 3.3 1.0 + - - +
156A ARG* 2.8 31.4 + - - +
307A TRP* 3.4 26.4 - - + +
308A ILE* 4.1 2.5 - - + +
311A TYR* 3.5 27.1 - - + -
312A THR* 3.4 18.8 - - + +
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Residues in contact with ARG 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A VAL* 3.0 39.9 + - + +
150A ASP* 3.8 13.4 + - - +
151A ALA 3.3 0.2 - - - -
152A ALA* 1.3 76.7 - - - +
154A ILE* 1.3 63.9 + - + +
156A ARG* 3.6 3.5 + - - +
157A GLN* 3.4 29.1 + - - +
187A LYS* 6.1 1.0 - - - +
312A THR* 3.8 24.4 + - + +
313A LYS 3.0 27.7 + - - -
314A GLU* 3.2 18.9 + - - +
316A ILE* 3.8 21.0 - - - +
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Residues in contact with ILE 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A LEU* 3.7 34.1 - - + -
140A ILE* 3.8 17.0 - - + -
143A ARG* 4.3 9.9 - - - +
146A PHE* 3.8 30.7 - - + -
150A ASP 3.2 16.0 + - - +
151A ALA* 3.5 6.5 - - - +
152A ALA 3.3 0.2 - - - -
153A ARG* 1.3 77.2 - - + +
155A ILE* 1.3 63.0 + - + +
157A GLN* 3.2 20.9 + - - +
158A VAL* 3.3 17.3 + - + +
180A LEU* 5.4 0.7 - - + -
191A ILE* 3.7 15.0 - - + +
239A ILE* 5.7 0.7 - - + -
243A LEU* 3.7 16.6 - - + -
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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 ALA 3.0 19.7 + - - +
152A ALA 3.9 2.2 - - - +
154A ILE* 1.3 77.3 - - + +
156A ARG* 1.3 60.0 + - - +
158A VAL* 3.3 8.2 + - + +
159A LEU* 2.9 48.2 + - + +
236A THR* 3.8 26.7 - - + +
239A ILE* 4.4 8.3 - - + -
240A LEU* 3.8 38.1 - - + +
243A LEU* 3.7 23.1 - - + -
284A LEU* 5.2 1.1 - - + -
288A MET* 5.2 1.3 - - - -
307A TRP* 4.5 4.5 - - + -
308A ILE* 4.3 7.4 - - + -
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Residues in contact with ARG 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 ALA 2.8 21.3 + - - +
153A ARG* 3.9 4.5 - - - +
154A ILE 3.4 0.2 - - - -
155A ILE* 1.3 73.4 - - - +
157A GLN* 1.3 60.0 + - + +
159A LEU* 4.6 0.7 - - - -
160A SER* 3.0 28.8 + - - -
303A LEU* 3.7 20.8 - - + +
308A ILE* 3.9 20.5 - - + +
309A GLN* 5.6 1.8 + - - +
312A THR* 2.9 47.8 + - + -
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Residues in contact with GLN 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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110A ASN* 3.0 40.0 + - - +
153A ARG* 3.4 19.2 + - - +
154A ILE* 3.2 9.9 + - - +
156A ARG* 1.3 77.8 - - + +
158A VAL* 1.3 65.5 + - - +
160A SER* 4.3 0.4 - - - -
161A GLY 3.1 18.2 + - - -
189A ALA 4.2 9.1 + - - -
190A ASN* 3.4 14.5 + - - +
191A ILE* 2.8 50.5 + - + +
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Residues in contact with VAL 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ILE* 3.3 19.5 + - + +
155A ILE* 3.3 12.7 + - + +
157A GLN* 1.3 76.4 - - - +
159A LEU* 1.3 57.0 + - - +
161A GLY* 3.3 3.5 + - - -
162A ILE* 2.9 52.4 + - + +
175A LEU* 4.1 9.0 - - + -
180A LEU* 4.1 33.2 - - + -
191A ILE* 4.3 11.9 - - + -
193A ILE* 3.8 13.4 - - + +
236A THR* 3.9 18.4 - - + +
239A ILE* 5.7 2.0 - - + -
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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* 2.9 36.6 + - + +
156A ARG* 4.1 2.0 - - - +
158A VAL* 1.3 74.1 - - - +
160A SER* 1.3 55.2 + - - +
162A ILE* 3.8 5.5 - - + +
163A THR* 2.6 38.4 + - - -
233A VAL* 5.6 2.7 - - + -
236A THR* 4.2 10.8 - - + +
284A LEU* 4.9 2.7 - - + -
288A MET* 3.8 25.1 - - + -
299A ALA* 4.3 18.6 - - + +
302A ALA* 3.7 38.1 - - + +
303A LEU* 3.9 16.2 - - + +
308A ILE* 4.3 11.2 - - + -
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Residues in contact with SER 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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108A HIS* 3.1 16.1 + - - -
110A ASN* 3.8 7.6 + - - -
156A ARG* 3.0 22.1 + - - -
157A GLN* 3.7 5.2 - - - -
158A VAL 3.2 0.2 - - - -
159A LEU* 1.3 77.0 - - - +
161A GLY* 1.3 61.6 + - - +
164A TYR 3.2 5.7 + - - -
303A LEU* 4.1 13.6 - - - +
706A EDO 2.9 44.3 + - - -
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Residues in contact with GLY 161 (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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108A HIS* 3.6 16.2 - - - -
110A ASN* 4.1 3.4 - - - -
111A ILE* 3.5 24.4 - - - +
157A GLN 3.1 14.2 + - - -
158A VAL 3.8 2.0 - - - -
160A SER* 1.3 75.0 - - - +
162A ILE* 1.3 63.1 + - - +
164A TYR* 3.3 4.7 + - - +
165A MET* 3.0 26.2 + - - +
193A ILE* 4.4 1.3 - - - -
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Residues in contact with ILE 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A VAL* 2.9 28.5 + - + +
159A LEU* 3.9 7.9 - - + +
161A GLY* 1.3 72.3 - - - +
163A THR* 1.3 67.0 + - - +
165A MET* 3.1 1.6 + - - -
166A HIS* 2.9 57.3 + - + +
175A LEU* 3.2 19.5 - - + -
193A ILE* 4.0 7.2 - - + -
196A PHE* 3.8 21.3 - - + -
232A ASP* 4.1 8.7 - - + +
233A VAL* 5.4 0.7 - - + -
236A THR* 3.2 28.0 - - + +
299A ALA* 3.7 10.8 - - + -
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Residues in contact with THR 163 (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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159A LEU 2.6 28.6 + - - -
162A ILE* 1.3 72.3 - - - +
164A TYR* 1.3 62.8 + - - +
166A HIS* 3.3 4.2 + - - +
167A LYS* 3.1 28.1 + - + +
299A ALA* 3.2 29.9 + - - -
300A ARG* 3.8 35.2 - - + +
303A LEU* 3.8 7.2 - - + +
706A EDO 3.7 24.2 - - - +
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Residues in contact with TYR 164 (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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105A GLN 4.9 0.2 + - - -
106A LEU* 3.4 25.3 - - + +
107A ASP* 3.0 42.7 + - - +
108A HIS* 3.4 39.9 - + + -
111A ILE* 5.2 0.7 - - + -
160A SER 3.2 4.6 + - - +
161A GLY 3.5 5.8 - - - +
162A ILE 3.2 0.2 - - - -
163A THR* 1.3 80.0 - - - +
165A MET* 1.3 76.7 + - + +
167A LYS* 3.4 13.5 - - + +
168A ASN* 3.0 40.0 + - - -
706A EDO 3.6 20.5 - - - -
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Residues in contact with MET 165 (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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103A LEU* 3.9 25.4 - - + -
106A LEU* 4.2 11.9 - - + -
111A ILE* 3.7 34.1 - - + -
161A GLY 3.0 16.9 + - - +
162A ILE 3.8 0.4 - - - +
164A TYR* 1.3 96.3 - - - +
166A HIS* 1.3 58.2 + - - +
168A ASN* 3.0 14.7 + - - +
170A ILE* 3.0 35.4 + - + +
196A PHE* 3.5 55.2 - - + -
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Residues in contact with HIS 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A ILE* 2.9 41.9 + - + +
163A THR* 3.8 5.8 - - - +
165A MET* 1.3 73.8 - - - +
167A LYS* 1.3 61.0 + - - +
169A LYS* 2.9 22.3 + - - +
170A ILE 3.3 18.8 - - - +
196A PHE* 4.4 3.1 - + - -
229A GLU* 3.0 54.6 + - + +
232A ASP* 2.8 25.9 + - + -
233A VAL* 4.7 4.7 - - + +
299A ALA* 4.2 13.1 + - + +
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Residues in contact with LYS 167 (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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163A THR* 3.1 24.7 + - + +
164A TYR* 3.4 13.7 - - + +
166A HIS* 1.3 76.9 - - - +
168A ASN* 1.3 63.1 + - - +
169A LYS* 3.3 7.8 + - - +
300A ARG* 4.8 15.2 - - - +
706A EDO 2.5 36.9 + - - +
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Residues in contact with ASN 168 (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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102A LEU* 4.0 18.8 - - + +
106A LEU* 3.5 46.5 - - + +
164A TYR* 3.0 36.2 + - - -
165A MET 3.0 8.7 + - - +
167A LYS* 1.3 79.3 - - - +
169A LYS* 1.3 72.4 + - - +
170A ILE* 3.2 11.4 + - + +
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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