Contacts of the helix formed by residues 134 - 157 (chain C) in PDB entry 1IES
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 LEU 134 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123B PRO* 3.6 34.3 - - + -
124B HIS* 4.2 16.6 - - + +
127B ASP* 6.0 0.9 - - + -
107C ASN* 4.7 4.0 + - - +
110C LEU* 3.9 33.0 - - + +
111C LEU* 4.2 19.7 - - + -
114C HIS* 3.9 7.2 - - + -
129C LEU* 3.0 18.3 + - + +
130C GLU* 3.7 31.6 + - + +
133C PHE* 1.3 77.6 - - - +
135C ASP* 1.3 60.8 + - - +
137C GLU* 3.4 5.5 - - - +
138C VAL* 3.2 23.7 + - - +
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Residues in contact with ASP 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B GLN* 4.4 4.0 + - - -
124B HIS* 3.2 28.2 + - + +
127B ASP* 5.1 7.9 - - - +
128B PHE* 6.1 1.0 - - - -
130C GLU 4.2 10.5 + - - +
131C SER 6.0 1.6 - - - +
133C PHE 3.4 0.6 - - - +
134C LEU* 1.3 73.0 - - - +
136C GLU* 1.3 65.3 + - - +
137C GLU 3.1 1.8 - - - -
138C VAL* 3.0 2.4 + - - +
139C LYS* 2.9 62.0 + - - +
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Residues in contact with GLU 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C TYR* 5.5 3.5 + - - -
57C GLU* 4.2 27.2 - - - +
58C LYS* 4.7 11.6 + - - -
61C GLY* 6.0 1.9 - - - -
132C HIS 3.5 22.6 - - - +
133C PHE* 3.8 14.6 - - - +
134C LEU 3.4 0.2 - - - -
135C ASP* 1.3 78.1 - - - +
137C GLU* 1.3 60.7 + - - +
139C LYS* 3.9 9.6 - - - +
140C LEU* 3.0 32.4 + - + +
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Residues in contact with GLU 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C TYR* 3.7 13.5 + - - -
58C LYS* 3.3 19.6 + - - -
103C GLU* 2.7 40.6 - - - +
106C LEU* 4.6 3.1 - - - +
107C ASN* 3.3 37.7 - - + +
110C LEU* 4.0 7.7 - - + +
133C PHE 3.1 17.5 + - - +
134C LEU 3.4 5.6 - - - +
136C GLU* 1.3 81.2 - - - +
138C VAL* 1.3 64.9 + - - +
140C LEU* 3.9 3.6 - - - +
141C ILE* 3.0 32.9 + - - +
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Residues in contact with VAL 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B GLN* 3.8 37.2 - - + +
72B ARG* 4.0 17.7 - - - +
124B HIS* 3.7 39.9 - - + +
107C ASN* 4.8 11.9 - - - +
134C LEU 3.2 11.2 + - - +
135C ASP* 3.0 7.7 + - - +
137C GLU* 1.3 76.2 - - - +
139C LYS* 1.3 62.6 + - - +
141C ILE* 4.0 5.6 - - + +
142C LYS* 3.1 22.7 + - - +
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Residues in contact with LYS 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B LYS* 4.8 8.5 - - - +
71B GLN* 3.7 32.0 + - - +
135C ASP* 2.9 45.9 + - - +
136C GLU* 3.9 7.6 - - - +
138C VAL* 1.3 77.0 - - - +
140C LEU* 1.3 60.3 + - - +
142C LYS* 3.2 6.1 + - - +
143C LYS* 3.0 22.9 + - - +
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Residues in contact with LEU 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C PHE* 4.9 1.3 - - + -
54C LEU* 3.6 34.5 - - + -
57C GLU* 4.8 7.4 - - - +
58C LYS* 4.1 8.3 - - - +
103C GLU* 3.5 29.2 - - + +
136C GLU* 3.0 21.8 + - + +
137C GLU* 3.9 5.8 - - - +
139C LYS* 1.3 74.4 - - - +
141C ILE* 1.3 64.5 + - - +
143C LYS* 3.1 31.4 + - + +
144C MET* 2.9 42.0 + - + +
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Residues in contact with ILE 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ILE* 3.5 37.2 - - + +
6B GLN* 4.2 6.5 - - - +
100C ILE* 4.2 6.2 - - + +
103C GLU* 3.7 41.3 - - + +
104C LYS* 4.1 14.6 - - + +
107C ASN* 4.0 23.8 - - + +
137C GLU* 3.0 23.4 + - - +
138C VAL* 4.2 5.4 - - - +
140C LEU* 1.3 73.8 - - - +
142C LYS* 1.3 57.3 + - - +
144C MET* 3.4 7.3 + - - +
145C GLY 2.9 23.2 + - - -
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Residues in contact with LYS 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ILE* 4.1 14.5 - - + +
70B ASN* 3.5 19.1 - - + +
71B GLN* 3.5 36.8 + - + +
138C VAL 3.1 15.6 + - - +
139C LYS* 3.6 8.3 - - - +
140C LEU 3.2 0.2 - - - -
141C ILE* 1.3 76.1 - - - +
143C LYS* 1.3 63.6 + - - +
145C GLY* 3.0 1.8 + - - +
146C ASP* 2.7 56.9 + - - +
38E ASP* 2.8 39.1 + - - +
40E ASP* 3.9 10.8 - - + +
43E ALA* 5.9 0.2 - - - +
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Residues in contact with LYS 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C PHE* 4.1 23.0 - - + -
54C LEU* 5.9 0.8 - - - +
139C LYS 3.0 13.1 + - - +
140C LEU* 3.1 23.6 + - + +
142C LYS* 1.3 75.0 - - - +
144C MET* 1.3 58.2 + - - +
146C ASP* 3.4 10.8 + - + +
147C HIS* 3.0 58.4 + - + +
174C ASP* 6.0 0.7 - - - +
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Residues in contact with MET 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR* 3.7 16.2 - - - +
50C PHE* 4.2 18.4 - - + -
54C LEU* 3.6 31.0 - - + -
96C MET* 4.5 8.8 - - - +
99C ALA* 3.9 11.4 - - + -
100C ILE* 4.0 31.2 - - + -
103C GLU* 3.9 22.2 - - + -
140C LEU* 2.9 30.2 + - + +
141C ILE* 3.7 4.9 - - - +
143C LYS* 1.3 77.5 - - - +
145C GLY* 1.3 55.7 + - - +
147C HIS* 3.1 8.0 + - - +
148C LEU* 2.9 31.9 + - - +
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Residues in contact with GLY 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B GLN* 3.0 31.5 + - - -
4B ILE* 3.5 19.5 - - - +
100C ILE* 4.1 5.1 - - - +
141C ILE 2.9 15.8 + - - -
142C LYS 3.0 3.3 + - - -
144C MET* 1.3 71.2 - - - +
146C ASP* 1.3 63.0 + - - +
148C LEU* 3.4 1.5 + - - -
149C THR* 3.2 15.1 + - - +
40E ASP* 4.0 4.5 - - - -
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Residues in contact with ASP 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C LYS* 2.7 48.8 + - - +
143C LYS* 3.5 13.5 - - + +
145C GLY* 1.3 76.0 - - - +
147C HIS* 1.3 64.7 + - - +
149C THR* 3.3 2.8 + - - -
150C ASN* 3.1 31.5 + - - +
38E ASP* 5.4 0.2 - - - +
40E ASP* 3.4 14.6 - - - -
43E ALA* 3.7 21.2 - - + +
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Residues in contact with HIS 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C PHE* 3.8 29.0 - + - -
96C MET* 4.1 20.4 - - + -
143C LYS* 3.0 45.0 + - + +
144C MET* 3.5 7.2 - - - +
146C ASP* 1.3 78.9 - - + +
148C LEU* 1.3 62.4 + - - +
150C ASN* 3.2 4.1 + - - +
151C ILE* 2.9 28.1 + - - +
166C PHE* 3.7 21.8 - + + -
170C THR* 4.0 23.0 - - + +
171C LEU* 4.0 11.1 - - + +
174C ASP* 4.2 10.3 - - - -
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Residues in contact with LEU 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B GLN* 4.0 22.9 - - + +
93C LEU* 3.5 25.8 - - + -
96C MET* 3.7 19.9 - - + +
97C LYS* 3.5 26.0 - - + -
100C ILE* 4.0 35.7 - - + -
144C MET* 2.9 17.4 + - + +
145C GLY 3.4 6.2 + - - +
147C HIS* 1.3 75.1 - - - +
149C THR* 1.3 56.9 + - - +
151C ILE* 3.3 5.7 + - - +
152C GLN* 2.8 37.6 + - - +
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Residues in contact with THR 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B GLN* 3.4 21.8 - - - +
145C GLY 3.2 2.3 + - - +
146C ASP 3.3 7.4 + - - -
147C HIS 3.3 0.2 - - - -
148C LEU* 1.3 73.9 - - - +
150C ASN* 1.3 59.1 + - - +
152C GLN* 3.3 11.7 + - - +
153C ARG* 3.0 34.3 + - - +
40E ASP 2.8 29.8 + - - +
41E ASP* 3.6 19.3 - - + -
42E VAL 4.2 4.8 + - - -
43E ALA* 3.4 11.8 - - - +
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Residues in contact with ASN 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C ASP* 3.1 17.4 + - - +
147C HIS* 3.7 7.7 + - - +
149C THR* 1.3 78.8 + - - +
151C ILE* 1.3 64.5 + - - +
153C ARG* 2.7 37.3 - - - +
154C LEU* 3.2 26.1 + - - +
166C PHE* 3.9 18.3 - - + -
170C THR* 5.6 0.9 - - - -
43E ALA* 3.0 21.5 + - - +
44E LEU* 3.9 4.6 - - - +
164E TYR* 3.6 26.7 - - + -
167E GLU* 5.5 0.6 + - - -
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Residues in contact with ILE 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C THR* 3.6 26.7 - - + +
93C LEU* 4.2 24.2 - - + +
96C MET* 3.5 33.9 - - + -
147C HIS 2.9 23.2 + - - +
148C LEU* 3.8 4.9 - - - +
150C ASN* 1.3 74.0 - - - +
152C GLN* 1.3 62.9 + - - +
154C LEU* 3.1 7.4 + - + -
155C VAL* 2.9 47.6 + - + +
162C GLY 5.9 0.2 - - - +
163C GLU* 5.4 2.9 - - + -
166C PHE* 3.7 28.5 - - + -
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Residues in contact with GLN 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B GLN* 4.4 9.0 + - - +
93C LEU* 3.8 19.0 - - + +
97C LYS* 3.8 28.3 - - - +
148C LEU* 2.8 35.1 + - - +
149C THR* 3.6 11.2 - - - +
151C ILE* 1.3 72.5 - - - +
153C ARG* 1.3 60.6 + - - +
155C VAL* 4.8 4.4 - - - +
156C GLY* 3.2 20.1 + - - -
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Residues in contact with ARG 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C THR* 3.0 17.9 + - - +
150C ASN* 2.7 59.4 - - - +
152C GLN* 1.3 75.4 - - - +
154C LEU* 1.3 65.3 + - + +
156C GLY* 4.1 0.5 - - - -
157C SER* 3.1 25.5 + - - -
41E ASP 4.8 3.0 + - - -
42E VAL* 2.8 36.6 + - - +
44E LEU* 3.3 21.7 - - - +
160E GLY* 3.6 33.9 - - - +
163E GLU* 4.4 14.6 + - - +
164E TYR* 4.1 11.9 - - - +
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Residues in contact with LEU 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C ASN 3.2 16.2 + - - +
151C ILE* 3.1 7.3 + - - +
153C ARG* 1.3 77.6 - - - +
155C VAL* 1.3 63.8 + - + +
157C SER* 3.1 6.1 + - - -
158C GLN 3.1 24.1 + - - +
162C GLY* 3.6 21.9 - - - +
165C LEU* 4.8 3.4 - - + -
166C PHE* 3.6 32.1 - - + +
161E LEU* 3.5 31.0 - - + +
164E TYR* 3.4 53.6 - - + -
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Residues in contact with VAL 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 4.5 23.6 - - + -
151C ILE* 2.9 33.3 + - + +
152C GLN* 4.9 2.5 - - + +
154C LEU* 1.3 74.2 - - - +
156C GLY* 1.3 67.2 + - - +
158C GLN 4.1 4.5 - - - -
159C ALA* 3.6 40.3 + - + +
162C GLY 4.6 0.2 - - - -
163C GLU* 4.2 19.3 - - + +
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Residues in contact with GLY 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C GLN 3.2 19.5 + - - -
153C ARG 4.1 0.9 - - - -
154C LEU 3.2 0.2 - - - -
155C VAL* 1.3 80.2 - - - +
157C SER* 1.4 65.1 + - - +
159C ALA 5.2 0.2 + - - -
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Residues in contact with SER 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C ARG 3.1 14.2 + - - -
154C LEU 3.1 8.8 + - - -
156C GLY* 1.4 79.8 - - - +
158C GLN* 1.3 66.0 + - - +
158E GLN* 3.3 40.7 + - - +
160E GLY* 3.5 6.9 + - - -
161E LEU* 3.3 29.5 + - - -
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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