Contacts of the helix formed by residues 150 - 171 (chain A) in PDB entry 3OP5
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 150 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ASN* 5.2 2.6 - - - +
149A PHE* 1.3 75.2 - - - +
151A ARG* 1.3 59.1 + - - +
152A LYS* 3.9 9.5 + - - +
153A THR* 2.8 34.1 + - - -
154A VAL* 2.9 28.2 + - - +
255A LEU* 4.2 0.9 - - - -
340A ASP* 4.9 4.3 + - - +
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Residues in contact with ARG 151 (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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150A SER* 1.3 71.5 - - - +
152A LYS* 1.4 56.3 + - - +
154A VAL* 3.5 1.0 + - - +
155A LEU* 3.0 43.6 + - + +
255A LEU* 3.7 21.9 - - + +
294A ASN 6.0 0.4 + - - -
296A PRO* 3.6 26.5 - - + +
297A GLY 4.3 2.4 - - - +
298A GLU* 2.7 43.1 + - - +
327A GLY 4.1 2.8 + - - -
330A ALA* 4.1 20.4 - - - +
331A ILE* 3.7 33.2 - - + +
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Residues in contact with LYS 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A SER* 3.2 8.7 - - - +
151A ARG* 1.4 79.3 - - - +
153A THR* 1.4 56.9 + - - +
155A LEU* 3.9 1.0 - - - +
156A GLN* 2.9 44.3 + - - +
328A LEU* 3.8 12.7 - - + +
331A ILE* 3.8 17.7 - - + +
333A SER* 2.8 32.3 + - - +
334A LYS 2.9 12.5 + - - -
336A ASP* 2.7 34.3 + - - -
338A LYS* 3.5 19.3 - - - +
340A ASP* 3.7 25.1 - - - +
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Residues in contact with THR 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A LEU* 6.3 0.2 - - + -
149A PHE* 3.9 20.2 - - + -
150A SER* 2.8 30.3 + - - -
152A LYS* 1.4 77.1 - - - +
154A VAL* 1.4 52.5 + - - +
156A GLN* 3.3 2.7 + - - +
157A LEU* 2.8 53.0 + - + +
339A LEU* 2.8 29.8 + - - +
340A ASP* 3.5 13.3 + - - +
341A LEU* 3.8 20.6 - - + +
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Residues in contact with VAL 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A PHE* 3.7 12.1 - - + +
150A SER 2.9 23.4 + - - +
151A ARG 4.0 3.1 - - - +
153A THR* 1.4 69.9 - - - +
155A LEU* 1.3 57.0 + - + +
157A LEU* 3.5 8.1 + - - +
158A SER* 2.7 37.7 + - - +
251A MET* 3.8 41.7 - - + +
254A TRP* 3.7 31.0 - - + -
255A LEU* 3.8 25.1 - - + -
299A ILE* 5.0 2.0 - - + -
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Residues in contact with LEU 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ARG* 3.0 30.8 + - + +
152A LYS 4.0 2.9 - - - +
154A VAL* 1.3 76.9 - - + +
156A GLN* 1.3 58.2 + - - +
158A SER* 3.5 4.0 + - - -
159A LEU* 3.0 36.0 + - - +
251A MET* 5.9 0.4 - - - -
298A GLU* 3.7 33.7 - - + +
299A ILE* 5.2 5.2 - - + -
324A LEU* 3.6 35.2 - - + +
327A GLY 3.6 30.3 - - - +
328A LEU* 3.7 22.4 - - + +
331A ILE* 4.8 1.3 - - + -
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Residues in contact with GLN 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 LYS* 2.9 46.6 + - - +
153A THR 3.8 2.0 - - - +
155A LEU* 1.3 72.2 - - - +
157A LEU* 1.4 65.1 + - - +
159A LEU* 3.6 4.3 + - - +
160A ARG* 3.3 33.5 + - - +
328A LEU* 3.3 16.6 - - + +
334A LYS 3.2 10.9 - - - +
335A ASP* 3.0 26.0 + - - -
337A GLY* 3.4 19.7 - - - +
338A LYS 3.2 20.2 - - - +
339A LEU* 3.8 21.4 - - + +
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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
----------------------------------------------------------
138A LEU* 3.7 37.9 - - + -
149A PHE* 4.1 16.8 - - + -
153A THR* 2.8 45.6 + - + +
154A VAL 3.8 4.0 - - - +
156A GLN* 1.4 72.0 - - - +
158A SER* 1.3 57.6 + - - +
160A ARG* 3.1 6.4 + - - +
161A ILE* 3.0 34.1 + - + +
193A VAL* 3.9 18.9 - - + +
254A TRP* 4.1 20.9 - - + -
339A LEU* 3.9 27.3 - - + +
341A LEU 5.6 0.7 - - - +
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Residues in contact with SER 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A VAL* 2.7 22.7 + - - +
155A LEU* 3.8 2.2 - - - -
157A LEU* 1.3 71.8 - - - +
159A LEU* 1.4 60.4 + - - +
161A ILE* 3.8 9.3 - - - +
162A LEU* 2.9 33.6 + - - +
247A LEU* 3.9 11.4 - - - +
251A MET* 3.3 32.2 - - - +
254A TRP* 4.5 2.8 - - - -
324A LEU* 3.6 22.0 - - - -
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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
----------------------------------------------------------
155A LEU 3.0 22.9 + - - +
156A GLN* 3.8 5.8 - - - +
157A LEU 3.3 0.4 - - - -
158A SER* 1.4 75.3 - - - +
160A ARG* 1.3 79.2 + - - +
162A LEU* 3.5 6.1 + - - +
163A ASP* 3.3 25.1 + - - +
321A ARG* 3.7 44.8 + - + +
324A LEU* 3.9 17.0 - - + +
325A LEU* 4.0 10.1 - - + -
328A LEU* 3.8 22.2 - - + -
335A ASP* 3.7 29.6 - - - +
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Residues in contact with ARG 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LEU* 6.0 0.6 - - - +
107A TYR* 3.5 46.9 - - + +
109A GLY 5.4 0.3 + - - -
156A GLN* 3.3 24.3 - - - +
157A LEU 3.1 8.1 + - - +
159A LEU* 1.3 95.1 + - - +
161A ILE* 1.3 62.8 + - - +
163A ASP* 3.1 35.6 + - - +
164A ILE* 3.1 26.9 + - + +
191A ASP 5.5 1.3 - - - +
193A VAL* 4.1 10.5 - - + +
321A ARG* 5.7 3.4 - - - +
335A ASP* 3.1 39.2 + - - -
337A GLY* 4.6 6.6 - - - -
339A LEU* 5.1 6.3 - - + -
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Residues in contact with ILE 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LEU* 3.0 27.4 + - + +
158A SER 3.8 4.5 - - - +
160A ARG* 1.3 73.5 - - - +
162A LEU* 1.4 53.4 + - - +
164A ILE* 3.1 14.0 + - + +
165A LEU* 2.8 49.3 + - + +
178A ILE* 4.2 14.6 - - + -
183A LEU* 3.8 41.3 - - + -
193A VAL* 5.0 4.5 - - + -
195A LEU* 5.6 2.7 - - + -
247A LEU* 3.8 30.7 - - + -
254A TRP* 3.8 17.7 - - + -
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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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158A SER 2.9 17.8 + - - +
159A LEU* 3.6 6.3 - - - +
160A ARG 3.3 0.2 - - - -
161A ILE* 1.4 76.1 - - - +
163A ASP* 1.4 56.8 + - - +
165A LEU* 4.0 2.6 - - + +
166A GLU* 2.9 30.7 + - - +
244A LEU* 3.7 30.1 - - + -
247A LEU* 3.9 15.5 - - + -
302A TYR* 4.4 8.5 - - + +
317A TYR* 4.4 9.1 - - + +
320A LEU* 3.9 27.6 - - + -
321A ARG* 3.5 30.1 + - + +
324A LEU* 3.7 26.7 - - + -
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Residues in contact with ASP 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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99A TRP* 4.8 2.9 + - - -
105A LEU* 3.8 30.0 - - + +
107A TYR 5.0 5.0 - - - +
108A LEU* 3.6 16.5 - - + +
109A GLY 6.0 0.2 - - - +
159A LEU 3.3 7.7 + - - +
160A ARG* 3.1 40.1 + - - +
162A LEU* 1.4 75.3 - - - +
164A ILE* 1.4 63.3 + - - +
166A GLU* 3.6 2.6 + - - +
167A TYR* 3.1 23.9 + - - +
321A ARG* 3.0 32.1 + - - +
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Residues in contact with ILE 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A LEU* 4.1 7.2 - - + -
109A GLY* 3.5 42.6 - - - +
110A VAL* 4.0 15.7 - - + +
160A ARG* 3.1 18.5 + - + +
161A ILE* 3.1 19.8 + - + +
163A ASP* 1.4 74.7 - - - +
165A LEU* 1.4 59.9 + - + +
167A TYR* 3.3 4.2 + - - +
168A ILE* 3.0 31.6 + - + +
183A LEU* 5.1 1.3 - - + -
193A VAL* 4.1 8.7 - - + +
194A TYR 4.6 0.7 - - - -
195A LEU* 3.8 44.9 - - + +
198A TYR* 4.2 4.3 - - - +
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Residues in contact with LEU 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 ILE* 2.8 39.2 + - + +
162A LEU* 4.0 4.3 - - + +
164A ILE* 1.4 70.0 - - - +
166A GLU* 1.3 65.7 + - - +
167A TYR 3.4 0.2 + - - -
168A ILE* 3.5 14.1 - - + +
169A HIS* 2.9 40.9 + - + -
175A HIS* 4.6 0.2 - - + -
178A ILE* 3.9 18.8 - - + -
195A LEU* 4.3 10.3 - - + -
243A ASP* 3.6 45.1 - - + +
244A LEU* 4.0 22.2 - - + -
247A LEU* 4.5 6.5 - - + -
317A TYR* 5.0 0.7 - - + -
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Residues in contact with GLU 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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99A TRP* 4.2 10.1 - - + -
103A ARG* 3.2 35.5 + - - +
162A LEU 2.9 19.3 + - - +
163A ASP 3.8 4.3 - - - +
165A LEU* 1.3 74.2 - - - +
167A TYR* 1.3 56.1 + - - +
169A HIS* 3.5 1.2 + - - +
170A GLU* 3.0 40.7 + - + +
314A LYS* 5.8 1.6 - - - -
317A TYR* 3.6 45.2 + - + +
321A ARG* 2.6 36.8 + - - +
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Residues in contact with TYR 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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90A ALA* 2.5 34.6 + - + -
95A GLN* 3.5 22.3 - - - +
96A ILE* 3.6 14.0 - - + +
99A TRP* 3.3 52.2 - + + -
108A LEU* 3.6 20.4 - - + -
110A VAL* 3.7 27.8 - - + -
163A ASP 3.1 15.0 + - - +
164A ILE 3.5 7.2 - - - +
166A GLU* 1.3 75.2 - - - +
168A ILE* 1.3 65.2 + - + +
170A GLU* 3.2 3.1 + - - +
171A HIS* 2.6 57.8 + + - -
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Residues in contact with ILE 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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86A PHE* 3.7 33.0 - - + -
110A VAL* 4.2 9.9 - - + -
164A ILE* 3.0 19.5 + - + +
165A LEU* 3.5 19.1 - - + +
167A TYR* 1.3 85.3 - - + +
169A HIS* 1.4 60.5 + - + +
171A HIS* 3.1 17.1 + - - +
173A TYR* 2.9 35.3 + - + +
174A VAL 4.0 1.6 - - - -
175A HIS* 3.6 38.1 - - + +
195A LEU* 5.0 2.9 - - + -
198A TYR* 4.5 13.5 - - + +
243A ASP* 4.1 6.7 - - - +
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Residues in contact with HIS 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A LEU* 2.9 35.6 + - + +
166A GLU 3.8 1.8 - - - +
168A ILE* 1.4 77.5 - - + +
170A GLU* 1.4 62.6 + - - +
172A GLU* 3.2 10.2 + - - -
173A TYR 3.2 20.4 + - - -
174A VAL* 3.7 9.6 - - + +
204A TYR* 2.6 23.1 + - - -
205A CYS* 5.0 0.5 - - - -
240A ARG* 3.4 40.4 - - + +
243A ASP* 2.7 33.4 + - + +
244A LEU* 4.9 3.1 - - + -
317A TYR* 2.7 35.5 + + + +
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Residues in contact with GLU 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A TRP* 3.9 25.8 - - + -
103A ARG* 4.7 5.2 - - - +
166A GLU* 3.0 28.8 + - + +
167A TYR 3.2 5.8 + - - +
169A HIS* 1.4 74.6 - - - +
171A HIS* 1.4 62.3 + - + +
172A GLU* 3.4 5.3 + - - +
240A ARG* 4.4 9.5 + - - -
314A LYS* 3.4 36.7 + - - +
317A TYR* 4.6 6.2 + - - -
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Residues in contact with HIS 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A ARG* 4.8 1.9 - - - +
90A ALA* 3.7 23.1 - - + +
95A GLN* 3.6 30.7 + - - +
99A TRP* 4.0 18.8 - + - -
167A TYR* 2.6 61.6 + + - +
168A ILE* 3.1 12.7 + - - +
170A GLU* 1.4 79.8 - - + +
172A GLU* 1.4 64.3 + - - +
173A TYR* 3.3 19.8 - - - -
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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