Contacts of the strand formed by residues 160 - 173 (chain A) in PDB entry 1P7L
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 160 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A GLN* 3.5 37.9 - - + +
151A VAL* 3.6 16.8 - - + -
152A ARG* 3.4 25.8 - - + +
157A LEU* 3.0 33.5 + - + +
158A PRO 3.8 6.1 - - - +
159A TRP* 1.3 111.6 - - + +
161A ARG* 1.3 62.4 + - - +
162A PRO* 4.9 0.2 - - - +
187A THR* 3.7 24.7 - - + +
188A GLN 3.9 2.0 - - - +
202A VAL* 5.3 0.9 - - + -
206A ILE* 4.2 4.3 - - + -
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Residues in contact with ARG 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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81A ASP* 3.4 44.8 + - - +
82A MET* 3.9 26.7 - - + +
148A GLN* 3.0 23.2 + - - -
152A ARG* 3.5 4.8 - - - -
159A TRP* 4.2 3.4 + - - +
160A LEU* 1.3 76.7 + - - +
162A PRO* 1.3 76.0 - - + +
163A ASP 3.4 3.9 + - - +
188A GLN* 3.0 41.5 + - + +
189A HIS 3.5 31.7 + - - -
190A SER* 3.7 22.5 - - - +
191A GLU 4.9 1.2 - - - +
231A VAL* 4.8 8.3 + - - +
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Residues in contact with PRO 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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11A SER* 2.5 31.4 + - - -
13A GLY* 3.2 12.6 + - - -
75A ILE* 4.2 3.6 - - + +
76A GLY* 3.9 31.2 - - - +
77A TYR* 3.6 32.8 - - + +
82A MET* 4.4 6.3 - - + -
152A ARG* 3.3 28.9 + - - +
161A ARG* 1.3 95.7 - - + +
163A ASP* 1.3 54.0 + - - +
164A ALA* 4.2 1.0 - - - +
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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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13A GLY 3.5 9.9 - - - -
14A HIS* 3.5 14.6 - - - +
15A PRO* 4.0 4.0 - - - +
77A TYR* 3.2 16.8 + - - +
161A ARG 3.4 2.8 - - - +
162A PRO* 1.3 76.5 - - - +
164A ALA* 1.3 65.3 + - - +
188A GLN* 2.7 47.2 + - + +
230A PHE* 3.6 3.6 - - - -
233A GLY* 3.6 5.7 - - - -
234A GLY* 2.8 22.3 + - - +
238A ASP* 5.6 0.2 - - - +
384A ANP 2.7 39.3 + - - -
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Residues in contact with ALA 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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10A VAL* 3.7 0.7 - - - +
11A SER* 2.8 36.3 + - - -
14A HIS* 4.4 1.0 - - - +
145A VAL* 4.4 4.3 - - + -
148A GLN* 3.7 32.3 - - + +
163A ASP* 1.3 83.0 + - - +
165A LYS* 1.3 70.0 + - - +
185A LEU* 5.5 2.2 - - + -
186A SER 3.1 13.2 - - - +
187A THR* 3.8 5.6 - - - +
230A PHE* 4.8 2.7 - - - -
384A ANP 4.6 0.2 - - - -
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Residues in contact with LYS 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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8A GLU* 4.2 4.2 + - - -
9A SER 3.5 5.4 - - - +
10A VAL* 3.4 21.7 - - + +
14A HIS* 3.6 6.5 + - + -
145A VAL* 4.1 3.4 - - - -
164A ALA* 1.3 79.9 - - - +
166A SER* 1.3 59.4 + - - +
185A LEU* 3.5 3.6 - - - +
186A SER* 2.7 46.0 + - - +
245A LYS* 4.9 0.4 - - - +
384A ANP 2.9 70.7 + - - +
387A MG 4.0 4.9 - - - -
118B ASP* 3.1 17.8 + - - -
119B GLN* 3.6 35.7 + - - +
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Residues in contact with SER 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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8A GLU* 3.2 3.5 - - - -
9A SER* 2.7 40.3 + - - +
141A ALA* 2.9 30.9 + - - +
144A LEU* 3.8 12.1 - - - +
145A VAL* 3.7 12.9 - - - +
165A LYS* 1.3 74.9 - - - +
167A GLN* 1.3 60.1 + - - +
184A VAL 3.3 4.9 - - - -
185A LEU* 3.7 21.5 - - - -
119B GLN* 3.3 4.6 + - - -
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Residues in contact with GLN 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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6A THR* 3.6 14.5 - - + +
7A SER 3.5 13.5 - - - +
8A GLU* 4.1 5.1 - - + +
166A SER* 1.3 74.3 - - - +
168A VAL* 1.3 68.2 + - - +
169A THR* 5.1 2.0 - - + +
182A ALA 4.1 0.6 - - - +
183A VAL* 3.4 0.3 - - - -
184A VAL* 2.5 60.5 + - + +
119B GLN* 3.4 12.9 + - - +
120B GLY* 2.6 34.0 + - - -
121B LEU* 5.0 0.2 - - - +
299B SER* 3.9 4.0 + - - -
300B TYR 2.6 29.4 + - - +
308B THR* 3.3 23.0 + - - +
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Residues in contact with VAL 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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5A PHE 4.2 0.5 - - - +
6A THR* 3.2 1.1 - - - +
7A SER* 3.1 32.2 + - - +
137A PRO 5.1 2.5 - - - +
140A TYR 5.0 0.9 - - - -
141A ALA* 4.4 14.6 - - + +
144A LEU* 3.4 32.1 - - + -
167A GLN* 1.3 79.9 - - - +
169A THR* 1.3 67.1 + - - +
170A PHE* 3.7 27.3 + - + -
180A ILE* 3.3 30.3 - - + -
182A ALA 3.7 5.6 - - - +
183A VAL* 4.4 9.2 - - + -
211A LEU* 5.0 4.7 - - + -
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Residues in contact with THR 169 (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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4A LEU* 4.6 4.5 - - - +
5A PHE 3.4 6.7 - - - -
6A THR* 3.2 31.2 - - + +
167A GLN* 5.1 2.7 - - + -
168A VAL* 1.3 80.9 - - - +
170A PHE* 1.3 63.3 + - - +
180A ILE* 2.9 18.9 - - - +
181A ASP* 3.1 17.2 + - - +
182A ALA* 3.2 35.3 + - + +
299B SER* 4.6 1.6 - - - +
308B THR* 4.3 16.2 + - - +
309B SER* 4.4 5.2 - - - -
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Residues in contact with PHE 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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4A LEU* 3.3 16.6 - - - +
5A PHE 3.0 22.3 + - - +
136A ALA* 4.5 4.5 - - + -
137A PRO* 3.3 40.2 - - + -
140A TYR* 3.4 30.1 - + + -
168A VAL* 3.7 20.6 - - + -
169A THR* 1.3 80.3 - - - +
171A GLN* 1.3 62.5 + - - +
172A TYR* 3.7 21.1 + - + -
177A ILE* 3.5 26.2 - - + -
179A GLY 3.4 4.0 - - - +
180A ILE* 4.0 16.4 - - + +
215A TRP* 3.5 30.1 - + - -
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Residues in contact with GLN 171 (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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2A LYS* 5.7 4.5 - - + -
4A LEU* 3.5 17.7 - - + -
170A PHE* 1.3 71.3 - - - +
172A TYR* 1.3 60.0 + - - +
177A ILE* 3.4 7.3 - - - +
178A VAL* 2.9 54.3 + - + +
179A GLY* 2.7 23.3 + - - +
180A ILE 3.7 8.1 + - - +
181A ASP* 2.6 43.7 + - - +
215A TRP 5.4 0.2 + - - -
217A THR* 5.4 6.3 + - - +
219A ALA* 5.2 8.3 - - - +
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Residues in contact with TYR 172 (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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1A ALA 3.3 3.5 - - - +
2A LYS* 3.2 4.0 - - - +
3A HIS* 2.8 66.9 + + + +
5A PHE* 4.1 23.1 - - + -
129A GLU* 2.7 40.0 + - - -
137A PRO* 3.3 18.8 - - + +
170A PHE* 3.7 26.9 - - + -
171A GLN* 1.3 76.5 - - - +
173A ASP* 1.3 59.9 + - - +
175A GLY 3.8 16.4 - - - -
176A LYS 3.3 16.2 - - - +
177A ILE* 3.7 18.4 - - + +
254A MET* 3.5 11.9 - - + +
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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
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1A ALA 3.5 18.7 + - - -
2A LYS* 3.0 42.2 + - + +
172A TYR* 1.3 74.2 - - - +
174A ASP* 1.3 90.4 + - - +
175A GLY 2.9 4.9 - - - -
176A LYS* 2.9 20.1 + - - +
178A VAL* 3.5 21.6 - - + +
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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