Contacts of the helix formed by residues 162 - 184 (chain A) in PDB entry 1ORR
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 HIS 162 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86A MET* 5.1 1.6 - - - +
127A LYS* 3.7 14.2 + - + +
130A GLY* 3.7 13.7 - - - -
131A ASP* 3.9 32.6 + - - +
160A ASP* 3.0 47.7 + - - -
161A PHE* 1.3 75.8 - - - +
163A SER* 1.3 79.3 + - - +
166A GLY* 3.2 10.3 - - - -
301A SER* 3.5 18.3 + - - +
178C ASP* 3.5 2.0 - - - +
181C ARG* 3.3 33.1 + - - -
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Residues in contact with SER 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A MET* 3.5 38.1 - - - +
90A ILE* 4.7 1.6 - - - -
162A HIS* 1.3 80.1 + - - +
164A PRO* 1.3 73.3 - - - +
165A TYR* 3.3 4.9 + - - +
166A GLY 2.8 13.3 + - - -
167A CYS* 2.7 27.2 + - - -
301A SER* 4.0 9.6 + - - -
178C ASP* 2.8 22.9 + - - +
182C ILE* 4.1 7.6 - - - +
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Residues in contact with PRO 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A SER* 3.4 31.6 - - - +
90A ILE* 3.8 12.6 - - + -
93A PRO* 4.1 12.8 - - + +
96A ASP* 2.9 14.9 - - - +
163A SER* 1.3 88.1 - - - +
165A TYR* 1.3 55.0 + - - +
167A CYS* 3.1 7.9 + - + +
168A SER* 2.8 26.9 + - - -
175C TYR* 3.8 12.2 + - + -
178C ASP* 3.6 8.7 - - - +
179C TYR* 5.1 2.5 - - + -
182C ILE* 4.4 4.9 - - + -
183C PHE* 4.1 24.9 - - + -
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Residues in contact with TYR 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A GLN* 3.1 29.4 - - - -
84A VAL* 3.7 23.3 + - - +
86A MET* 4.0 17.0 - - + -
89A SER* 3.1 23.1 + - - +
96A ASP* 3.5 13.0 - - - -
125A THR* 3.6 27.9 + - + -
127A LYS* 4.1 15.9 - - + -
163A SER* 3.0 7.8 - - - +
164A PRO* 1.3 76.4 - - - +
166A GLY* 1.3 63.4 + - - +
168A SER* 3.1 0.3 + - - -
169A LYS* 3.0 50.0 + - + +
1200A NAD 3.2 34.6 + - - -
1201A CDP 5.7 3.6 - - - -
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Residues in contact with GLY 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A LYS* 4.2 22.0 - - - -
128A VAL* 4.5 2.8 - - - +
161A PHE* 3.6 11.3 - - - +
162A HIS 3.2 17.0 - - - -
163A SER* 2.8 11.7 + - - -
165A TYR* 1.3 78.9 - - - +
167A CYS* 1.3 56.8 + - - +
169A LYS* 4.3 2.4 - - - +
170A GLY* 2.9 27.5 + - - -
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Residues in contact with CYS 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A PHE* 3.7 24.9 - - + -
163A SER 2.7 14.9 + - - +
164A PRO 3.6 2.9 - - - +
166A GLY* 1.3 75.0 - - - +
168A SER* 1.3 57.2 - - - +
170A GLY 4.0 0.2 - - - -
171A ALA* 3.0 29.1 + - - +
171C ALA* 5.5 0.3 - - - +
174C GLN* 3.6 20.2 - - + -
175C TYR* 3.5 35.4 - - + +
178C ASP* 3.5 33.2 - - - -
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Residues in contact with SER 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ASP* 2.6 33.3 + - - -
100A ASN* 3.0 31.1 + - - +
101A VAL* 3.4 18.9 - - - +
164A PRO 2.8 9.7 + - - -
165A TYR 3.1 5.7 + - - -
167A CYS* 1.3 71.6 - - - +
169A LYS* 1.3 72.6 + - - +
171A ALA 3.4 0.2 + - - -
172A ALA* 3.1 22.3 + - - +
175C TYR* 3.3 14.8 + - - -
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Residues in contact with LYS 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A ALA 5.3 0.6 + - - -
82A GLY* 5.2 0.4 - - - -
100A ASN* 3.6 26.3 + - - +
122A TYR* 3.1 29.4 + - - +
123A SER 2.8 28.6 + - - -
124A SER* 4.1 8.7 + - - +
125A THR* 3.6 17.3 - - + -
128A VAL* 4.6 1.1 - - - -
165A TYR* 3.0 44.3 + - + +
168A SER* 1.3 77.8 + - - +
170A GLY* 1.4 53.1 + - - +
172A ALA* 3.3 2.8 + - - +
173A ASP* 2.8 35.7 + - - +
1200A NAD 2.9 31.6 + - - +
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Residues in contact with GLY 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A VAL* 3.7 16.3 - - - +
161A PHE* 3.5 22.9 - - - -
166A GLY 2.9 20.8 + - - -
169A LYS* 1.4 75.1 - - - +
171A ALA* 1.4 63.7 + - - +
173A ASP* 3.2 3.1 + - - +
174A GLN* 2.9 28.9 + - - +
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Residues in contact with ALA 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A VAL* 4.1 19.3 - - + -
161A PHE* 3.7 6.7 - - + -
167A CYS 3.0 19.1 + - - +
168A SER 3.8 4.3 - - - +
170A GLY* 1.4 75.6 - - - +
172A ALA* 1.3 63.0 + - - +
174A GLN* 3.3 5.0 + - - +
175A TYR* 3.0 31.4 + - + -
101C VAL* 5.8 0.2 - - + -
161C PHE* 5.4 1.8 - - - -
167C CYS 5.7 0.4 - - - -
171C ALA* 3.6 30.3 - - + -
175C TYR* 5.2 1.6 - - + -
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Residues in contact with ALA 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A ASN 3.6 16.6 - - - +
101A VAL* 4.7 3.9 - - - +
104A THR* 3.7 13.7 - - - +
105A LEU* 5.2 1.6 - - - -
122A TYR* 3.3 32.1 - - + +
168A SER 3.1 16.3 + - - +
169A LYS 3.5 0.7 - - - +
171A ALA* 1.3 76.5 - - - +
173A ASP* 1.3 57.6 + - - +
175A TYR* 3.3 6.3 + - - +
176A MET* 2.8 34.1 + - - +
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Residues in contact with ASP 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A TYR* 3.8 11.6 - - - -
124A SER* 2.8 26.8 + - - +
128A VAL* 4.0 6.2 - - - +
159A LEU* 6.2 0.2 - - - -
161A PHE* 6.1 0.9 - - - -
169A LYS 2.8 18.0 + - - +
170A GLY* 3.2 8.7 - - - +
172A ALA* 1.3 78.1 - - - +
174A GLN* 1.3 71.4 + - - +
176A MET* 3.3 4.2 + - - +
177A LEU* 3.2 27.2 + - - +
189A VAL* 3.5 8.3 - - - +
191A ARG* 2.8 45.4 + - - +
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Residues in contact with GLN 174 (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* 3.8 16.2 - - - +
161A PHE* 4.1 7.2 - - + -
170A GLY 2.9 19.1 + - - +
171A ALA* 3.9 3.1 - - - +
173A ASP* 1.3 99.5 + - - +
175A TYR* 1.4 57.5 + - - +
177A LEU* 3.3 14.1 + - - +
178A ASP* 2.9 30.1 + - - +
191A ARG* 3.5 13.7 - - - +
160C ASP* 3.5 13.0 + - - +
161C PHE* 2.9 67.1 + - + +
167C CYS* 3.7 4.4 - - + -
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Residues in contact with TYR 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A VAL* 4.9 2.5 - - + -
105A LEU* 3.7 32.5 - - + -
108A LEU* 4.0 13.2 - - + -
171A ALA 3.0 26.6 + - - +
172A ALA* 3.7 5.2 - - - +
174A GLN* 1.4 71.3 - - - +
176A MET* 1.3 67.8 + - - +
178A ASP* 5.6 0.2 - - + -
179A TYR* 2.9 47.8 + + - -
93C PRO* 4.9 2.1 + - + -
96C ASP* 4.1 1.4 + - - -
97C PHE* 3.5 37.7 - + + +
101C VAL* 4.7 1.8 - - + -
164C PRO* 3.7 15.0 + - + +
167C CYS* 3.6 39.0 - - + -
168C SER* 3.1 29.0 + - - -
171C ALA* 5.2 2.5 - - + -
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Residues in contact with MET 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A HIS* 3.9 11.2 - - + -
104A THR* 3.4 27.1 - - + -
107A LEU* 4.7 3.8 - - + -
108A LEU* 3.9 24.4 - - + +
120A ILE* 3.9 26.5 - - + -
122A TYR* 3.8 34.3 - - + -
172A ALA 2.8 19.8 + - - +
173A ASP 3.5 7.9 - - - +
174A GLN 3.3 0.2 - - - -
175A TYR* 1.3 79.1 - - - +
177A LEU* 1.3 57.9 + - - +
179A TYR* 3.6 1.0 + - - +
180A ALA 3.5 8.7 + - - -
187A THR* 2.8 39.2 + - - +
188A VAL 5.3 0.2 - - - +
189A VAL* 3.6 13.9 - - + -
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Residues in contact with LEU 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A ASP* 3.2 27.7 + - - +
174A GLN* 3.7 19.7 - - - +
175A TYR 3.2 0.2 - - - -
176A MET* 1.3 73.4 - - - +
178A ASP* 1.3 64.2 + - - +
180A ALA* 3.2 13.9 + - - +
181A ARG* 3.3 36.1 + - - +
187A THR* 4.4 2.9 - - - +
188A VAL 5.4 0.2 - - - -
189A VAL* 3.8 14.6 - - + +
191A ARG* 3.8 9.9 - - - +
261A GLY* 3.4 27.3 - - - +
262A ASN 3.6 22.7 - - - +
263A ALA* 3.8 8.7 - - + +
160C ASP* 6.1 0.2 - - - +
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Residues in contact with ASP 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A GLN 2.9 17.3 + - - +
175A TYR* 4.0 2.2 - - - +
177A LEU* 1.3 75.2 - - - +
179A TYR* 1.4 62.2 + - + +
181A ARG* 3.0 26.9 + - - +
182A ILE* 2.7 50.5 + - - +
162C HIS* 3.3 1.5 - - - -
163C SER* 2.6 51.0 + - - -
164C PRO* 3.2 7.6 - - - +
167C CYS* 3.5 14.1 - - - -
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Residues in contact with TYR 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LEU* 4.2 7.9 - - + +
108A LEU* 3.7 44.4 - - + -
109A GLU* 2.6 34.1 + - - +
112A ARG* 4.0 5.4 - - + -
175A TYR* 2.9 47.6 + + - +
176A MET 4.1 4.5 - - - +
177A LEU 3.3 0.4 - - - -
178A ASP* 1.4 80.3 - - + +
180A ALA* 1.3 61.2 + - - +
183A PHE* 3.1 48.4 + + - +
184A GLY 3.2 0.2 + - - -
185A LEU* 3.1 36.8 + - + -
187A THR* 5.0 0.2 - - + -
93C PRO* 3.4 18.1 - - + +
164C PRO* 5.0 3.4 - - + -
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Residues in contact with ALA 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A MET 3.5 3.6 + - - -
177A LEU 3.2 9.7 + - - +
178A ASP 3.1 0.8 - - - -
179A TYR* 1.3 78.2 - - - +
181A ARG* 1.3 59.8 + - - +
184A GLY* 3.1 16.6 + - - -
185A LEU* 3.3 23.8 - - - +
187A THR* 3.5 18.3 + - - +
260A ARG* 3.0 23.8 + - - +
261A GLY* 3.6 21.1 - - - +
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Residues in contact with ARG 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A LEU* 3.3 35.8 + - - +
178A ASP* 3.0 39.4 + - - +
180A ALA* 1.3 80.9 - - - +
182A ILE* 1.3 70.0 + - + +
184A GLY* 4.5 1.2 + - - -
261A GLY 4.8 6.1 + - - -
160C ASP* 3.8 13.3 + - - -
161C PHE 3.2 19.0 + - - -
162C HIS* 3.5 36.0 + - - -
300C GLU* 5.5 1.7 - - - +
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Residues in contact with ILE 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A ASP* 2.7 44.1 + - - +
181A ARG* 1.3 82.7 - - + +
183A PHE* 1.3 90.2 + - + +
184A GLY 3.5 0.4 + - - -
90C ILE* 4.1 13.0 - - + -
162C HIS* 6.0 0.4 - - + -
163C SER* 3.8 20.9 - - - +
164C PRO* 4.2 1.8 - - + -
300C GLU* 2.8 60.5 - - + +
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Residues in contact with PHE 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A ARG* 3.4 40.8 - - + +
116A SER* 5.6 1.7 - - - -
179A TYR* 3.1 49.5 + + - +
182A ILE* 1.3 100.7 - - + +
184A GLY* 1.3 62.9 + - - +
185A LEU* 3.3 13.6 + - + +
90C ILE* 3.5 31.4 - - + -
93C PRO* 4.0 13.9 - - + -
164C PRO* 4.1 13.0 - - + -
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Residues in contact with GLY 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A SER 4.9 2.4 - - - +
180A ALA 3.1 16.7 + - - -
181A ARG 4.4 1.0 + - - -
182A ILE 3.5 2.6 + - - -
183A PHE* 1.3 75.3 - - - +
185A LEU* 1.3 68.1 + - - +
186A ASN* 3.7 6.4 + - - +
260A ARG* 3.7 10.0 + - - -
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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