Contacts of the helix formed by residues 149 - 170 (chain A) in PDB entry 2V5Q
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 THR 149 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ARG* 4.0 7.8 - - - +
148A LEU* 1.3 76.6 - - - +
150A GLU* 1.3 66.0 + - - +
151A PRO* 3.6 11.2 - - - +
152A GLU* 2.7 39.1 + - - +
153A ALA* 3.1 18.2 + - - +
322A PRO* 4.6 8.5 - - + -
323A PRO* 4.0 19.3 - - + +
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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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148A LEU 3.9 1.0 + - - -
149A THR* 1.3 71.0 - - - +
151A PRO* 1.3 66.5 - - + +
153A ALA* 3.1 2.1 + - - +
154A ARG* 2.8 61.0 + - - +
245A LEU* 3.9 21.1 - - + +
274A ILE* 5.7 0.3 - - - +
275A ASN* 3.0 42.2 + - - +
278A ALA* 3.7 14.0 + - - +
304A PHE* 3.9 15.0 - - + -
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Residues in contact with PRO 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A THR* 3.5 15.0 - - - +
150A GLU* 1.3 93.5 - - + +
152A GLU* 1.3 56.3 + - + +
154A ARG* 3.4 7.4 + - - +
155A TYR* 2.8 30.7 + - - +
309A TYR* 3.6 48.2 - - + +
311A PRO* 3.7 16.1 - - + +
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Residues in contact with GLU 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A LEU* 5.6 0.3 - - - +
145A ARG* 2.8 43.3 + - - -
148A LEU* 4.1 14.9 - - + +
149A THR* 2.7 33.7 + - - +
151A PRO* 1.3 78.6 - - + +
153A ALA* 1.3 63.4 + - - +
155A TYR* 3.1 7.2 + - - +
156A TYR* 2.9 37.5 + - + -
311A PRO* 5.7 0.2 - - + -
314A LEU* 3.9 19.3 - - + +
318A CYS* 3.6 13.5 - - - +
323A PRO* 3.3 24.7 - - + +
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Residues in contact with ALA 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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148A LEU* 4.3 10.3 - - + +
149A THR 3.1 7.9 + - - +
150A GLU 3.1 8.4 + - - +
152A GLU* 1.3 76.6 - - - +
154A ARG* 1.3 55.0 + - - +
156A TYR* 3.2 2.1 + - - +
157A LEU* 2.8 53.3 + - + +
244A LEU* 4.3 16.8 - - + -
245A LEU* 3.7 28.5 - - + -
304A PHE* 4.8 1.3 - - + -
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Residues in contact with ARG 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A GLU* 2.8 52.3 + - - +
151A PRO* 3.6 18.2 - - - +
153A ALA* 1.3 72.6 - - - +
155A TYR* 1.3 57.8 - - - +
157A LEU 3.8 0.2 - - - -
158A ARG* 2.9 34.7 + - - +
277A VAL* 6.2 0.6 - - - +
304A PHE* 2.6 58.6 + - + +
305A PHE* 3.9 9.4 - - + +
307A SER 3.5 10.6 + - - -
308A GLY* 3.5 15.8 - - - -
309A TYR* 2.8 43.5 + - - +
310A ILE* 3.6 20.6 - - + -
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Residues in contact with TYR 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A PRO 2.8 18.5 + - - +
152A GLU* 3.4 4.9 - - - +
154A ARG* 1.3 78.5 - - - +
156A TYR* 1.3 81.1 + + - +
158A ARG* 3.9 3.3 + - - +
159A GLN* 3.1 46.5 + - - +
187A ASP 3.3 14.7 + - - -
188A LEU* 2.7 28.1 + - + +
189A GLU* 4.6 0.7 - - - -
310A ILE* 4.2 15.4 - - + +
311A PRO* 3.8 31.9 - - + -
312A ALA 4.8 6.3 - - - -
313A ARG* 5.3 0.2 - - - -
314A LEU* 3.8 37.1 + - + +
312B ALA* 5.1 13.8 - - + +
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Residues in contact with TYR 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A LEU* 3.9 16.8 - - + -
141A LEU* 3.6 27.4 - - + +
148A LEU* 3.8 20.0 - - + -
152A GLU* 2.9 30.1 + - + +
153A ALA* 3.9 2.7 - - - +
155A TYR* 1.3 94.6 - + - +
157A LEU* 1.3 61.4 + - - +
159A GLN* 3.3 8.1 + - - +
160A ILE* 3.0 42.6 + - + +
184A LEU* 3.9 24.0 - - + +
188A LEU* 4.1 8.7 - - + +
190A VAL* 3.8 16.9 - - + +
244A LEU* 4.5 4.9 - - + -
314A LEU* 3.3 25.2 - - + +
318A CYS* 3.8 13.7 - - - -
319A LEU* 5.0 0.5 - - - +
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Residues in contact with LEU 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 ALA* 2.8 40.5 + - + +
156A TYR* 1.3 70.5 - - - +
158A ARG* 1.3 66.6 + - - +
160A ILE* 3.7 14.6 - - + +
161A VAL* 2.9 28.9 + - - +
237A ILE* 4.4 15.3 - - + -
240A ILE* 4.2 4.0 - - + -
241A MET* 3.6 49.6 - - + +
244A LEU* 4.0 18.8 - - + -
304A PHE* 3.9 13.9 - - + -
305A PHE* 3.6 18.6 - - + -
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Residues in contact with ARG 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 ARG 2.9 18.6 + - - +
155A TYR* 4.3 4.2 + - - +
156A TYR 3.3 0.4 - - - -
157A LEU* 1.3 75.9 - - - +
159A GLN* 1.3 60.6 + - + +
161A VAL* 3.2 4.6 + - - +
162A LEU* 2.9 39.7 + - + +
300A LEU* 4.2 14.5 - - + +
305A PHE* 3.3 27.3 + - + -
310A ILE* 3.6 41.3 - - + +
158B ARG* 3.0 50.0 - - - +
162B LEU* 4.2 17.2 - - - +
312B ALA* 6.2 1.8 - - - +
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Residues in contact with GLN 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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112A HIS* 3.1 45.1 - - + +
155A TYR* 3.1 58.1 + - - +
156A TYR 3.3 5.8 + - - +
158A ARG* 1.3 77.9 - - + +
160A ILE* 1.3 64.9 + - - +
162A LEU* 3.3 4.4 + - + +
163A GLY* 3.0 19.9 + - - -
188A LEU 3.8 2.0 + - - -
189A GLU* 3.2 8.2 - - - +
190A VAL* 2.7 40.4 + - + +
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Residues in contact with ILE 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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138A LEU* 3.8 27.1 - - + -
156A TYR* 3.0 28.1 + - + +
157A LEU* 3.3 22.0 + - + +
159A GLN* 1.3 76.4 - - - +
161A VAL* 1.3 62.3 + - + +
164A CYS* 3.1 22.3 + - - +
177A LEU* 5.0 4.7 - - + -
182A LEU* 3.8 27.4 - - + -
190A VAL* 3.9 21.3 - - + -
192A ILE* 3.8 10.1 - - + +
237A ILE* 4.2 27.1 - - + -
240A ILE* 4.4 6.7 - - + -
244A LEU* 4.9 0.2 - - + -
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Residues in contact with VAL 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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157A LEU 2.9 22.3 + - - +
158A ARG* 3.2 4.9 + - - +
160A ILE* 1.3 77.5 - - + +
162A LEU* 1.3 52.2 + - - +
164A CYS* 3.2 6.0 + - - +
165A GLN* 2.7 33.5 + - + +
237A ILE* 4.3 13.9 - - + -
296A ILE* 3.7 31.5 - - + +
299A LEU* 4.0 20.0 - - + -
300A LEU* 3.7 29.6 - - + +
305A PHE* 3.9 17.9 - - + -
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Residues in contact with LEU 162 (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 HIS* 3.7 15.1 + - + +
112A HIS* 4.3 20.0 - - + +
158A ARG* 2.9 31.4 + - + +
159A GLN* 3.8 5.4 - - + +
161A VAL* 1.3 77.3 - - - +
163A GLY* 1.3 62.8 + - - +
165A GLN* 3.4 14.5 + - - +
166A TYR* 3.1 17.3 + - - +
300A LEU* 3.7 31.2 - - + -
158B ARG* 4.1 23.3 - - - +
305B PHE 6.0 0.7 - - - +
306B THR* 5.0 11.7 - - + -
310B ILE* 6.3 0.9 - - + -
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Residues in contact with GLY 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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110A HIS* 3.9 8.7 - - - -
112A HIS* 3.8 23.5 - - - +
113A VAL* 4.2 1.6 - - - +
159A GLN 3.0 10.3 + - - -
162A LEU* 1.3 76.2 - - - +
164A CYS* 1.3 57.7 + - - +
166A TYR* 3.2 7.4 + - - +
167A LEU* 3.1 28.4 + - - +
192A ILE* 3.7 15.7 - - - -
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Residues in contact with CYS 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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160A ILE 3.1 18.0 + - - +
161A VAL 3.7 2.9 - - - +
163A GLY* 1.3 73.0 - - - +
165A GLN* 1.3 61.6 + - - +
167A LEU* 3.1 13.9 + - - +
168A HIS* 2.9 52.2 + - - -
177A LEU* 4.1 7.6 - - + -
192A ILE* 3.6 7.5 - - + +
233A ASP* 3.8 19.5 - - - -
237A ILE* 4.0 10.3 - - + -
296A ILE* 3.7 21.3 - - + -
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Residues in contact with GLN 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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161A VAL 2.7 22.0 + - - +
162A LEU* 3.6 11.3 + - - +
163A GLY 3.3 0.2 - - - -
164A CYS* 1.3 72.5 - - - +
166A TYR* 1.3 61.6 + - - +
168A HIS* 3.2 2.8 + - - +
169A ARG* 3.0 56.6 + - - +
296A ILE* 3.5 24.6 - - + +
297A ASN* 2.7 40.9 + - - +
300A LEU* 3.4 23.5 - - + +
306B THR* 3.9 16.8 - - - +
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Residues in contact with TYR 166 (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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107A SER 4.1 4.2 + - - -
108A LEU* 3.4 30.2 - - + +
109A ALA* 2.8 39.9 + - - +
110A HIS* 3.4 49.1 - + + +
113A VAL* 4.2 2.9 - - + -
162A LEU 3.1 6.8 + - - +
163A GLY 3.4 10.1 - - - +
164A CYS 3.2 0.2 - - - -
165A GLN* 1.3 78.0 - - - +
167A LEU* 1.3 69.9 + - + +
169A ARG* 3.4 6.6 + - + +
170A ASN* 2.9 57.1 + - - -
306B THR 6.0 0.4 - - - -
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Residues in contact with LEU 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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108A LEU* 3.6 33.7 - - + -
113A VAL* 4.0 14.4 - - + -
163A GLY 3.1 15.6 + - - +
164A CYS* 3.1 20.5 + - - +
166A TYR* 1.3 81.9 - - + +
168A HIS* 1.3 63.4 + - + +
170A ASN* 3.1 6.1 + - - -
171A ARG 3.0 4.7 + - - -
172A VAL* 2.9 41.4 + - + +
174A HIS* 4.1 24.0 - - + +
177A LEU* 5.4 0.4 - - + -
192A ILE* 4.5 10.8 - - + -
195A PHE* 3.9 22.0 - - + -
233A ASP* 5.2 0.2 - - - +
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Residues in contact with HIS 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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164A CYS* 2.9 31.8 + - - +
165A GLN 3.8 4.0 - - - +
167A LEU* 1.3 73.4 - - + +
169A ARG* 1.3 58.7 + - + +
171A ARG* 2.9 21.0 + - - +
172A VAL 3.4 18.2 - - - -
173A ILE* 4.7 0.2 - - - -
230A PHE* 3.3 58.4 + + + +
233A ASP* 2.8 31.8 + - + +
234A VAL* 4.9 4.9 - - + -
296A ILE* 3.7 31.4 + - + +
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Residues in contact with ARG 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A GLN* 3.0 59.1 + - + +
166A TYR* 3.8 7.4 - - - +
167A LEU 3.3 0.4 - - - -
168A HIS* 1.3 76.5 - - + +
170A ASN* 1.3 63.4 + - - +
171A ARG* 3.2 17.1 + - - +
296A ILE* 5.8 1.9 - - + +
297A ASN* 3.7 18.2 - - - +
301B ASN* 5.1 9.9 + - - +
306B THR* 4.0 22.6 + - - +
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Residues in contact with ASN 170 (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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107A SER 6.1 0.4 - - - -
108A LEU* 4.7 15.0 - - + -
166A TYR* 2.9 56.3 + - - +
167A LEU 3.1 5.4 + - - +
169A ARG* 1.3 81.4 - - - +
171A ARG* 1.3 84.8 + - - +
172A VAL* 3.2 3.8 + - - +
200A LYS* 3.1 25.9 + - - +
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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