Contacts of the strand formed by residues 148 - 166 (chain A) in PDB entry 1H6F
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 LYS 148 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A LYS 4.5 3.6 - - - +
147A ALA* 1.3 75.0 - - - +
149A TYR* 1.3 63.6 + - - +
191A PRO* 4.7 8.6 + - + -
192A ALA* 3.5 7.6 - - - +
193A THR* 3.0 46.2 - - + +
196A GLN* 4.2 7.1 + - - +
236A ARG* 3.7 8.0 - - - +
237A ALA 3.3 20.6 + - - +
238A ASN* 3.8 34.8 - - + +
241B LEU* 6.4 2.7 - - + -
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Residues in contact with TYR 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A PRO* 5.8 2.4 - - + +
143A LEU* 3.7 24.2 - - + +
144A ASP* 2.9 41.8 + - - +
147A ALA* 3.4 28.5 - - + -
148A LYS* 1.3 71.9 - - - +
150A ILE* 1.3 64.5 + - - +
151A LEU* 4.0 9.0 - - + -
191A PRO* 3.4 2.9 - - - +
192A ALA 2.8 20.2 + - - -
194A GLY* 3.8 15.7 - - - -
197A TRP* 3.0 28.2 + + + +
234A ILE* 3.6 21.5 - - + -
235A VAL 3.3 6.3 - - - +
236A ARG* 3.7 37.8 + - + -
237A ALA 3.8 1.1 - - - -
249A ARG* 6.1 4.0 - - - -
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Residues in contact with ILE 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A TYR* 1.3 75.6 - - - +
151A LEU* 1.3 64.6 + - - +
152A LEU* 3.6 19.8 - - + +
186A ILE* 3.9 15.5 - - + -
190A SER* 3.6 18.8 - - - +
191A PRO* 4.0 10.5 - - + -
235A VAL* 2.8 34.6 + - + +
237A ALA* 3.5 25.6 - - + +
239A ASP 3.9 21.5 - - - +
240A ILE* 3.6 21.8 - - + -
243A LEU* 3.9 25.1 - - + -
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Residues in contact with LEU 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A CYS* 4.2 8.7 - - - -
143A LEU* 5.3 1.8 - - + -
149A TYR* 4.0 12.1 - - + -
150A ILE* 1.3 80.8 - - - +
152A LEU* 1.3 64.8 + - - +
186A ILE* 3.8 0.2 - - - -
187A HIS* 2.8 33.0 + - + -
190A SER* 3.2 8.1 + - - -
197A TRP* 3.4 59.1 - - + +
202A VAL* 4.0 14.4 - - + -
204A PHE* 4.2 1.3 - - + -
232A PHE* 3.6 30.5 - - + -
233A HIS 3.4 2.2 - - - +
234A ILE* 4.1 17.0 - - + -
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Residues in contact with LEU 152 (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 ILE* 3.6 28.0 - - + +
151A LEU* 1.3 78.3 - - - +
153A MET* 1.3 65.2 + - - +
184A MET* 3.6 30.7 - - + -
185A TYR 3.0 10.1 - - - +
186A ILE* 4.0 11.9 - - + -
204A PHE* 3.5 4.5 - - - -
232A PHE* 3.4 8.3 - - - -
233A HIS* 2.8 37.8 + - + +
235A VAL* 3.7 24.7 - - + -
243A LEU* 3.9 24.7 - - + -
248A PHE* 4.0 14.6 - - + -
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Residues in contact with MET 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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132A MET* 4.4 3.6 - - - -
136A PHE* 3.8 39.5 - - + +
152A LEU* 1.3 80.0 - - - +
154A ASP* 1.3 68.6 + - - +
155A ILE* 4.4 7.6 - - + -
184A MET* 3.7 2.8 - - - -
185A TYR* 2.8 34.8 + - + -
204A PHE* 3.6 39.9 - - + -
207A LEU* 3.4 34.8 - - + -
230A PRO* 4.1 18.6 - - + -
231A ARG 3.2 13.5 - - - +
232A PHE* 4.8 2.2 - - + -
233A HIS* 3.9 1.3 - - - -
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Residues in contact with ASP 154 (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 MET* 1.3 80.3 - - - +
155A ILE* 1.3 69.2 + - - +
156A ILE* 3.7 8.1 - - - +
182A LYS* 4.7 7.5 - - + +
183A ARG 3.3 19.5 - - - +
184A MET* 3.7 17.7 - - - +
185A TYR* 4.9 2.9 - - - -
231A ARG* 2.8 64.9 + - - +
233A HIS* 2.9 25.6 + - - -
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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
----------------------------------------------------------
132A MET* 4.1 18.8 - - - -
153A MET* 4.4 6.7 - - + -
154A ASP* 1.3 80.8 - - - +
156A ILE* 1.3 64.9 + - - +
182A LYS* 2.9 31.1 - - - +
183A ARG 4.6 2.2 + - - -
185A TYR* 6.2 0.2 - - + -
207A LEU* 4.1 11.0 - - + -
209A LEU* 3.7 30.5 - - + -
220A THR* 4.2 14.6 + - + +
222A LEU* 4.5 4.0 - - + -
228A TYR* 3.5 33.7 - - + -
229A GLN 3.7 10.3 - - - +
230A PRO* 4.1 10.8 - - + -
258A PHE* 4.1 11.0 - - + -
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Residues in contact with ILE 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ASP* 3.7 11.4 - - - +
155A ILE* 1.3 80.0 - - - +
157A ALA* 1.3 73.6 + - - +
182A LYS* 4.4 11.0 - - + -
228A TYR* 3.3 8.2 - - - -
229A GLN* 2.8 43.7 + - + +
231A ARG* 3.5 53.4 - - + +
252A LEU* 5.9 0.9 - - + -
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Residues in contact with ALA 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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156A ILE* 1.3 88.8 - - - +
158A ALA* 1.3 62.6 + - - +
159A ASP* 3.3 16.9 + - - +
160A ASP* 5.3 3.8 - - - +
179A GLU* 4.1 31.0 - - + +
182A LYS* 4.8 3.4 - - - +
227A LYS 3.5 7.2 - - - +
228A TYR* 3.7 8.8 - - + -
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Residues in contact with ALA 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ILE 3.3 2.1 + - - -
157A ALA* 1.3 74.0 - - - +
159A ASP* 1.3 62.9 + - - +
227A LYS* 2.8 41.0 + - + +
228A TYR 4.0 9.9 - - - +
229A GLN* 4.3 9.0 - - + +
257A GLU* 3.8 15.9 - - - +
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Residues in contact with ASP 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A ALA* 3.3 20.3 - - - +
158A ALA* 1.3 79.6 + - - +
160A ASP* 1.3 67.0 + - - +
161A CYS* 3.0 34.3 + - - +
163A TYR* 2.5 32.1 + - - -
176A ALA* 5.0 1.9 - - - +
227A LYS* 4.1 14.5 + - - +
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Residues in contact with ASP 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A ALA* 5.3 3.8 - - - +
159A ASP* 1.3 79.8 - - - +
161A CYS* 1.3 62.9 + - - +
175A LYS* 2.9 31.4 + - + +
176A ALA* 2.8 27.6 + - - +
179A GLU* 6.0 1.9 - - - +
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Residues in contact with CYS 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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159A ASP* 3.0 30.8 + - - +
160A ASP* 1.3 84.3 - - - +
162A ARG* 1.3 62.1 + - - +
163A TYR* 3.7 19.3 - - + -
172A VAL* 3.7 35.7 - - + -
174A GLY 3.5 4.0 - - - -
175A LYS* 5.9 0.2 - - - -
176A ALA* 3.6 5.6 - - - +
226A HIS* 3.7 16.5 - - - +
227A LYS 4.5 0.2 + - - -
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Residues in contact with ARG 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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161A CYS* 1.3 74.8 - - - +
163A TYR* 1.3 71.1 + - - +
164A LYS* 5.5 1.4 - - - +
172A VAL* 3.7 4.5 - - - -
173A ALA* 2.9 53.6 + - - +
174A GLY* 2.8 14.0 + - - +
175A LYS 3.6 18.4 + - - +
176A ALA 3.8 1.2 - - - +
177A ASP* 4.2 12.1 + - - -
224A SER 5.5 0.2 - - - -
225A MET* 3.7 10.1 - - + +
226A HIS* 3.9 26.5 - - + -
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Residues in contact with TYR 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 ASP* 2.5 24.1 + - - -
161A CYS* 3.7 23.1 - - + -
162A ARG* 1.3 84.0 + - - +
164A LYS* 1.3 61.8 + - - +
170A TRP* 3.7 28.0 - + + -
171A MET* 3.4 26.9 - - - +
172A VAL* 3.7 23.5 - - + +
173A ALA* 4.2 3.9 - - - +
225A MET* 2.7 41.3 + - - +
226A HIS* 4.5 0.9 - - - -
227A LYS* 3.1 54.0 + - + -
259A ILE* 4.7 4.3 - - + -
4C T 5.1 0.2 + - - -
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Residues in contact with LYS 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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162A ARG* 5.5 2.0 - - - +
163A TYR* 1.3 75.3 - - - +
165A PHE* 1.3 59.9 + - - +
166A HIS* 4.0 34.2 + - + -
169A ARG 3.6 1.0 - - - +
170A TRP* 3.5 8.6 - - - -
171A MET* 2.9 47.8 + - + +
172A VAL 5.4 1.1 - - - -
173A ALA* 4.0 22.8 - - + +
225A MET* 4.2 5.8 - - - -
4C T 4.6 8.3 - - - +
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Residues in contact with PHE 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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164A LYS* 1.3 71.5 - - - +
166A HIS* 1.3 61.3 + - - +
168A SER* 3.5 41.5 - - - -
169A ARG* 3.2 17.7 - - - -
170A TRP* 3.6 38.2 - + + -
225A MET* 4.5 3.6 - - - +
265A GLN* 3.7 50.6 + - + +
266A ASN* 3.7 28.3 - - + -
4C T 5.0 1.4 + - - -
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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
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164A LYS* 3.8 35.3 + - + +
165A PHE* 1.3 76.5 - - - +
167A ASN* 1.3 101.5 + - - +
168A SER 3.1 1.6 - - - +
169A ARG* 2.8 26.0 + - - +
171A MET* 5.0 7.0 - - + +
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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) + - + + + + + -
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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