Contacts of the strand formed by residues 160 - 173 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148C GLN* 3.5 37.2 - - + +
151C VAL* 3.6 17.3 - - + -
152C ARG* 3.4 25.8 - - + +
157C LEU* 3.1 32.9 + - + +
158C PRO 3.9 5.5 - - - +
159C TRP* 1.3 111.3 - - + +
161C ARG* 1.3 62.8 + - - +
162C PRO* 4.8 0.2 - - - +
187C THR* 3.7 24.9 - - + +
188C GLN 3.9 1.6 - - - +
202C VAL* 5.2 0.7 - - + -
206C ILE* 4.2 4.5 - - + -
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Residues in contact with ARG 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81C ASP* 3.3 46.8 + - - +
82C MET* 3.9 25.6 - - + +
148C GLN* 3.1 18.4 + - - -
152C ARG* 3.6 4.0 - - - -
159C TRP 3.8 3.6 + - - -
160C LEU* 1.3 75.7 + - - +
162C PRO* 1.3 79.2 - - + +
163C ASP 3.3 5.0 + - - +
188C GLN* 3.0 42.4 + - + +
189C HIS 3.5 31.6 + - - +
190C SER* 3.8 21.5 - - - +
191C GLU 4.9 1.0 - - - +
231C VAL* 4.7 8.7 + - - +
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Residues in contact with PRO 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11C SER* 2.7 27.9 + - - -
13C GLY* 3.5 13.6 - - - -
75C ILE* 4.3 4.9 - - + -
76C GLY* 3.8 28.5 - - - +
77C TYR* 3.5 35.9 - - + +
82C MET* 4.3 8.1 - - - -
148C GLN* 4.0 2.3 + - - -
152C ARG* 3.4 27.8 + - - +
161C ARG* 1.3 94.1 - - + +
163C ASP* 1.3 55.9 + - - +
164C ALA 3.4 0.3 + - - -
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Residues in contact with ASP 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13C GLY 3.6 10.1 + - - -
14C HIS* 3.6 14.9 - - - +
15C PRO* 3.7 4.7 - - - +
77C TYR* 3.2 9.8 + - - +
161C ARG 3.3 2.4 + - - +
162C PRO* 1.3 78.6 - - - +
164C ALA* 1.3 62.3 + - - +
188C GLN* 2.7 54.4 + - + +
230C PHE* 3.6 3.4 - - - -
233C GLY* 3.5 5.4 - - - -
234C GLY* 2.7 23.5 + - - +
685C SAM 2.6 39.5 + - - -
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Residues in contact with ALA 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C VAL* 4.1 0.5 - - - +
11C SER* 2.8 37.9 + - - -
14C HIS* 4.5 2.1 - - - +
145C VAL* 4.5 4.5 - - + -
148C GLN* 3.7 31.2 - - + +
163C ASP* 1.3 82.1 + - - +
165C LYS* 1.3 69.6 + - - +
185C LEU* 5.5 2.0 - - + -
186C SER 3.0 13.7 - - - +
187C THR* 3.8 6.1 - - - +
230C PHE* 4.7 2.9 - - - -
685C SAM 4.6 0.2 - - - -
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Residues in contact with LYS 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8C GLU* 4.2 5.6 + - - -
9C SER 3.6 5.2 - - - +
10C VAL* 3.4 21.0 - - + +
14C HIS* 3.7 5.1 + - + -
145C VAL* 4.1 3.1 - - - -
164C ALA* 1.3 80.1 - - - +
166C SER* 1.3 60.5 + - - +
185C LEU* 3.6 3.7 - - - +
186C SER* 2.7 41.5 + - - +
230C PHE* 5.5 0.2 - - - -
245C LYS* 5.2 0.2 - - - +
684C PPK 2.8 31.9 + - - +
685C SAM 3.5 36.1 - - - +
118D ASP* 2.9 22.3 + - - -
119D GLN* 3.3 36.1 + - - +
687D MG 3.9 3.8 - - - -
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Residues in contact with SER 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8C GLU* 3.2 1.7 - - - -
9C SER 2.8 33.8 + - - -
141C ALA* 3.0 30.4 + - - +
144C LEU* 3.9 11.4 - - - -
145C VAL* 3.6 15.8 - - - +
165C LYS* 1.3 75.9 - - - +
167C GLN* 1.3 58.2 + - - +
184C VAL 3.3 5.2 - - - -
185C LEU* 3.8 19.1 - - - -
119D GLN* 3.1 11.0 + - - +
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Residues in contact with GLN 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6C THR* 3.6 13.2 - - + +
7C SER 3.5 13.7 - - - +
8C GLU* 4.3 4.7 - - + +
141C ALA* 5.4 0.2 - - - -
166C SER* 1.3 74.5 - - - +
168C VAL* 1.3 69.8 + - - +
169C THR* 5.0 2.1 - - + +
183C VAL* 3.5 0.3 - - - -
184C VAL* 2.5 59.3 + - + +
119D GLN* 3.5 9.2 - - - +
120D GLY* 2.6 37.7 + - - -
121D LEU* 4.8 0.2 - - - +
299D SER* 3.5 9.3 + - - -
300D TYR 2.7 24.5 + - - -
308D THR* 3.2 22.6 + - - -
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Residues in contact with VAL 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5C PHE 4.2 0.3 - - - +
6C THR* 3.3 1.4 - - - +
7C SER* 3.1 32.5 + - - +
137C PRO 5.2 1.3 - - - +
140C TYR* 5.1 1.3 - - + -
141C ALA* 4.5 15.9 - - + +
144C LEU* 3.4 30.7 - - + -
167C GLN* 1.3 81.4 - - - +
169C THR* 1.3 67.0 + - - +
170C PHE* 3.6 26.6 - - + -
180C ILE* 3.3 29.8 - - + -
182C ALA 3.6 4.9 - - - +
183C VAL* 4.3 9.9 - - + -
211C LEU* 5.1 4.7 - - + -
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Residues in contact with THR 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C LEU* 4.5 4.5 - - - +
5C PHE 3.3 7.2 - - - -
6C THR* 3.2 31.9 - - + +
167C GLN* 5.0 2.5 - - + -
168C VAL* 1.3 79.1 - - - +
170C PHE* 1.3 64.9 + - - +
180C ILE* 3.0 18.4 - - - +
181C ASP* 3.2 17.7 + - - +
182C ALA* 3.1 35.3 + - + +
299D SER* 4.4 2.2 - - - +
308D THR* 4.3 5.9 + - - +
309D SER* 4.2 14.3 - - - -
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Residues in contact with PHE 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C LEU* 3.2 17.3 - - - +
5C PHE 3.0 21.6 + - - +
136C ALA* 4.4 5.4 - - + -
137C PRO* 3.4 38.6 - - + -
140C TYR* 3.4 30.3 - + + -
168C VAL* 3.6 22.0 - - + -
169C THR* 1.3 79.9 - - - +
171C GLN* 1.3 62.3 + - - +
172C TYR* 3.7 21.4 + - + -
177C ILE* 3.5 27.1 - - + -
179C GLY 3.4 3.4 - - - +
180C ILE* 4.0 15.9 - - + +
215C TRP* 3.5 29.6 - + - -
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Residues in contact with GLN 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2C LYS* 5.8 4.0 - - + -
4C LEU* 3.5 16.6 - - + -
170C PHE* 1.3 72.4 - - - +
172C TYR* 1.3 61.2 + - - +
177C ILE* 3.4 7.1 - - - +
178C VAL* 3.0 52.6 + - + +
179C GLY* 2.6 22.2 + - - +
180C ILE 3.7 7.5 + - - +
181C ASP* 2.5 44.0 + - - +
215C TRP 5.4 0.4 + - - -
217C THR* 5.4 5.9 + - - +
219C ALA* 5.2 8.9 - - - +
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Residues in contact with TYR 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1C ALA 3.4 3.0 - - - +
2C LYS* 3.1 4.0 - - - +
3C HIS* 2.7 67.7 + + + +
5C PHE* 4.1 26.7 - - + -
129C GLU* 2.7 39.9 + - - -
137C PRO* 3.3 19.0 - - + +
170C PHE* 3.7 23.8 - - + -
171C GLN* 1.3 76.5 - - - +
173C ASP* 1.3 59.0 + - - +
175C GLY 3.7 20.2 - - - -
176C LYS 3.3 13.7 - - - -
177C ILE* 3.7 16.7 - - + +
254C MET* 3.4 11.8 - - + +
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Residues in contact with ASP 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1C ALA 3.5 17.8 + - - -
2C LYS* 2.9 44.2 + - + +
172C TYR* 1.3 74.1 - - - +
174C ASP* 1.3 93.9 + - - +
175C GLY 2.8 4.5 - - - -
176C LYS* 2.8 21.5 + - - +
178C 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