Contacts of the strand formed by residues 163 - 175 (chain C) in PDB entry 2HJ9
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 GLY 163 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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159C MET* 3.7 13.5 - - - -
160C THR* 2.5 39.3 + - - -
161C SER 3.5 1.4 + - - -
162C ILE* 1.3 79.1 - - - +
164C SER* 1.3 66.2 + - - -
165C ARG* 4.1 3.2 - - - +
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Residues in contact with SER 164 (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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157C ASN* 3.7 16.2 - - - -
158C VAL 3.2 11.0 - - - -
159C MET* 3.7 22.8 - - - +
163C GLY* 1.3 72.5 - - - -
165C ARG* 1.3 81.5 + - - +
166C HIS* 3.3 16.7 + - - -
193C ASP* 3.7 7.6 - - - +
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Residues in contact with ARG 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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133C TYR* 3.2 36.5 + - + +
135C VAL* 5.1 1.3 - - + -
156C ILE 3.3 2.3 - - - +
157C ASN* 3.3 5.5 - - - +
158C VAL 2.7 36.7 + - - +
160C THR* 3.7 15.5 - - + +
162C ILE* 3.1 45.2 + - - +
163C GLY* 4.3 1.4 - - - -
164C SER* 1.3 99.4 + - - +
166C HIS* 1.3 63.1 + - - +
167C MET* 3.8 24.5 - - + +
191C VAL* 4.3 11.8 - - + +
193C ASP* 3.5 25.3 + - - +
194C ASN* 5.6 3.9 + - - -
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Residues in contact with HIS 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C TYR* 3.1 28.1 + - + +
156C ILE 3.5 3.4 - - - -
157C ASN* 3.2 29.6 + - - -
164C SER* 3.3 23.1 + - - -
165C ARG* 1.3 74.1 - - - +
167C MET* 1.3 59.1 + - - +
191C VAL 3.7 0.2 - - - -
192C LEU* 2.8 40.6 + - + +
193C ASP* 2.8 38.7 + - - +
215C ALA* 3.8 19.3 - - + +
220C LEU* 3.3 33.8 - - + +
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Residues in contact with MET 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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114C PHE* 3.7 32.3 - - - -
133C TYR* 6.3 0.2 - - - -
135C VAL* 4.4 8.5 - - + -
143C LEU* 4.2 17.0 - - + -
154C TYR 3.4 0.3 - - - +
155C TYR* 3.4 8.2 - - - -
156C ILE* 2.8 41.4 + - + +
158C VAL* 3.2 35.2 - - + -
165C ARG* 3.8 20.9 - - + +
166C HIS* 1.3 78.8 - - - +
168C LEU* 1.3 64.7 + - - +
169C VAL* 4.0 13.9 - - + -
189C ALA* 4.7 1.8 - - + -
190C VAL 3.1 12.1 - - - +
191C VAL* 4.1 14.4 - - + -
192C LEU* 4.7 0.7 - - - +
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Residues in contact with LEU 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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64C PHE* 4.5 6.5 - - + -
68C PHE* 3.6 43.1 - - + -
153C TRP* 3.6 31.8 - - + -
154C TYR 3.2 8.3 - - - +
155C TYR* 4.1 7.6 - - + -
167C MET* 1.3 78.1 - - - +
169C VAL* 1.3 59.8 + - - +
189C ALA* 3.3 2.4 - - - -
190C VAL 2.8 36.4 + - - +
192C LEU* 3.8 27.1 - - + +
257C VAL* 4.0 33.7 - - + -
264C LEU* 5.0 0.4 - - + -
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Residues in contact with VAL 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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116C PHE* 5.3 2.7 - - + -
143C LEU* 4.7 15.9 - - + -
147C VAL* 3.8 17.7 - - + -
152C ASN 3.6 1.0 - - - +
153C TRP* 3.6 2.2 - - - -
154C TYR* 2.8 37.9 + - - +
156C ILE* 3.8 26.9 - - + -
167C MET* 4.0 15.0 - - + -
168C LEU* 1.3 79.8 - - - +
170C ARG* 1.3 63.2 + - - +
187C PHE* 4.1 19.1 - - + -
188C ASN 3.3 11.4 - - - +
189C ALA* 3.8 18.8 - - + -
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Residues in contact with ARG 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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72C GLN* 3.3 27.8 + - - +
75C HIS* 2.9 38.8 + - + +
76C ASP* 2.9 30.9 + - - -
147C VAL* 4.2 5.6 - - - -
151C ASN* 3.6 33.2 + - - +
152C ASN 3.3 22.8 - - - +
153C TRP* 3.5 43.6 - - + +
169C VAL* 1.3 73.4 - - - +
171C ARG* 1.3 60.4 + - - +
172C VAL* 3.4 10.3 - - - +
187C PHE* 3.3 6.4 - - - +
188C ASN* 3.1 32.6 + - + +
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Residues in contact with ARG 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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217B ASP* 3.9 17.6 + - - -
75C HIS* 4.3 0.7 - - - -
144C ALA 5.4 0.6 + - - -
147C VAL* 3.4 30.1 + - + +
148C SER* 3.3 27.3 + - - +
149C PHE 4.0 4.5 + - - +
150C SER* 3.1 29.0 + - - +
151C ASN* 2.9 27.4 + - - +
152C ASN 4.6 1.0 + - - -
170C ARG* 1.3 75.6 - - - +
172C VAL* 1.3 67.8 + - - +
185C PHE* 3.4 44.5 - - + -
186C SER 3.2 9.9 - - - +
187C PHE* 3.7 32.7 - - + -
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Residues in contact with VAL 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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75C HIS* 4.0 10.8 - - + +
76C ASP* 3.4 26.0 - - - +
79C SER* 3.2 33.4 - - - +
80C LYS* 5.0 5.2 - - - +
151C ASN* 3.5 14.8 - - - +
170C ARG* 3.4 14.6 - - - +
171C ARG* 1.3 79.1 - - - +
173C PRO* 1.4 79.6 - - + +
185C PHE* 3.4 6.1 - - - -
186C SER* 2.9 30.1 + - - +
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Residues in contact with PRO 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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208B GLU* 3.6 22.9 - - - +
236B TYR* 4.3 14.8 - - + +
79C SER* 4.7 1.9 + - - +
80C LYS* 5.6 1.7 + - - +
150C SER* 3.6 22.2 - - - +
151C ASN* 4.4 8.5 - - - +
172C VAL* 1.4 98.8 - - + +
174C ILE* 1.3 61.9 + - - +
175C LEU* 3.8 15.3 + - + +
182C VAL* 3.9 20.4 - - + -
184C GLY 3.5 6.3 - - - +
185C PHE* 3.7 9.2 - - + -
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Residues in contact with ILE 174 (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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79C SER* 3.4 33.4 - - - +
84C ILE* 3.8 18.8 - - + -
85C ARG* 3.9 24.0 - - + +
88C TYR* 3.9 30.5 - - + +
117C LEU* 4.7 0.2 - - + -
172C VAL 4.2 0.2 - - - +
173C PRO* 1.3 74.3 - - - +
175C LEU* 1.3 58.4 + - - +
182C VAL* 3.5 1.4 - - - -
183C LEU* 2.7 38.5 + - + +
184C GLY 2.8 17.7 + - - +
186C SER* 3.7 33.9 - - - +
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Residues in contact with LEU 175 (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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208B GLU* 3.9 22.2 - - + +
236B TYR* 3.7 23.6 - - + -
79C SER 5.6 0.4 + - - -
85C ARG* 3.7 17.3 + - - +
173C PRO* 3.8 14.1 + - + +
174C ILE* 1.3 77.4 - - - +
176C ASP* 1.3 65.7 + - - +
177C PRO* 3.4 17.2 - - + +
180C GLY* 4.4 7.2 - - - +
181C GLU 3.1 4.9 - - - +
182C VAL* 3.5 33.2 - - + -
183C LEU* 4.0 3.8 - - - -
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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
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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