Contacts of the strand formed by residues 145 - 160 (chain C) in PDB entry 5O67
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 ILE 145 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119C TYR* 3.9 4.7 - - - +
121C ALA* 3.6 33.4 + - + +
122C ARG 4.8 5.5 - - - +
143C ASP 4.3 0.2 - - - -
144C ARG* 1.3 68.0 - - - +
146C LYS* 1.3 62.2 + - - +
147C ALA* 3.8 5.0 + - + +
177C SER* 6.1 1.3 - - - -
178C THR 3.4 7.4 - - - +
179C TYR* 4.3 26.7 - - + +
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Residues in contact with LYS 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C ARG* 4.0 23.1 - - - +
119C TYR 3.5 6.5 - - - -
120C ASP* 4.5 9.6 + - - +
144C ARG* 3.3 6.7 + - + +
145C ILE* 1.3 73.1 - - - +
147C ALA* 1.3 59.9 + - - +
177C SER* 3.5 0.7 - - - -
178C THR* 2.9 45.3 + - - +
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Residues in contact with ALA 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C ALA 4.1 0.4 - - - +
118C ARG* 3.8 5.9 - - - +
119C TYR* 2.8 55.3 + - + +
145C ILE* 4.7 2.9 - - + +
146C LYS* 1.3 75.2 - - - +
148C ASP* 1.3 66.7 + - - +
149C ASN* 4.5 7.4 - - - +
175C ARG* 5.5 4.3 - - - +
176C GLU 3.4 6.5 - - - +
177C SER* 3.7 19.1 - - - +
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Residues in contact with ASP 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363B ASN* 4.7 0.7 + - - -
116C TYR* 2.6 37.3 + - + -
117C ALA 3.8 3.8 - - - -
118C ARG* 3.3 23.5 + - - -
147C ALA* 1.3 73.5 - - - +
149C ASN* 1.3 63.1 + - - +
150C TRP* 4.3 8.6 + - - +
174C TYR* 4.2 0.9 - - - +
175C ARG* 3.8 1.7 - - - -
176C GLU* 3.0 48.8 + - + +
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Residues in contact with ASN 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C THR 3.7 0.5 - - - +
116C TYR* 3.4 4.9 - - - -
117C ALA* 2.8 41.1 + - + +
119C TYR* 3.3 34.3 + - - -
147C ALA* 4.5 5.4 - - - +
148C ASP* 1.3 81.9 + - - +
150C TRP* 1.3 65.8 + - - +
151C THR* 5.3 4.0 - - - +
173C VAL* 5.9 1.8 - - + -
174C TYR 3.6 6.5 - - - +
175C ARG* 3.5 39.6 + - + +
176C GLU 4.5 0.5 + - - -
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Residues in contact with TRP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C ILE* 4.1 31.2 - - + -
115C THR 3.1 7.0 - - - -
116C TYR* 3.8 46.1 - + + -
148C ASP* 4.8 7.9 - - + +
149C ASN* 1.3 78.6 - - - +
151C THR* 1.3 68.5 + - - +
173C VAL* 3.7 3.1 - - - +
174C TYR* 3.1 61.2 + + + +
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Residues in contact with THR 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C GLY 3.7 0.9 - - - +
114C ILE* 3.4 7.0 - - - -
115C THR* 2.8 46.5 + - - +
149C ASN* 5.3 4.2 - - - +
150C TRP* 1.3 81.0 + - - +
152C LEU* 1.3 64.8 + - - +
153C ASP* 3.3 27.6 + - - +
171C PRO* 4.2 11.9 - - + -
172C VAL 3.3 11.0 - - - +
173C VAL* 4.4 12.8 - - + +
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Residues in contact with LEU 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C THR* 3.9 22.7 - - + -
113C GLY 3.4 15.0 - - - +
114C ILE* 4.4 16.1 - - + +
151C THR* 1.3 72.9 - - - +
153C ASP* 1.3 58.7 + - - +
154C LEU* 4.2 24.7 - - + -
170C VAL 4.0 0.9 - - - +
171C PRO* 3.6 1.4 - - - +
172C VAL* 2.7 54.4 + - + +
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Residues in contact with ASP 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C GLU* 3.7 1.4 - - - +
112C THR* 3.5 5.4 - - - +
113C GLY* 2.8 40.9 + - - +
115C THR* 4.7 6.9 + - - -
151C THR* 3.3 25.4 - - - +
152C LEU* 1.3 73.7 - - - +
154C LEU* 1.3 63.5 + - - +
155C THR* 4.2 3.5 + - - +
169C ASN* 3.3 24.8 + - - +
170C VAL 3.8 1.1 - - - -
171C PRO* 3.5 17.0 - - - +
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Residues in contact with LEU 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C PHE* 4.0 24.7 - - + -
111C GLU 3.6 2.7 - - - -
112C THR* 4.0 21.5 - - + +
152C LEU* 4.2 18.6 - - + +
153C ASP* 1.3 80.5 - - - +
155C THR* 1.3 61.2 + - - +
168C VAL 4.0 0.3 - - - +
169C ASN* 3.2 1.8 + - - +
170C VAL* 2.8 55.3 + - + +
172C VAL* 4.5 17.5 - - + -
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Residues in contact with THR 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C SER 4.0 0.3 - - - +
110C PHE* 3.3 12.7 - - - -
111C GLU* 2.8 51.2 + - - +
153C ASP* 4.7 3.1 - - - +
154C LEU* 1.3 73.4 + - - +
156C GLY* 1.3 67.2 + - - +
157C ARG* 3.5 32.0 - - + +
167C ASP* 4.7 4.7 - - + -
168C VAL 3.4 13.9 - - - +
169C ASN* 3.0 28.7 + - + +
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Residues in contact with GLY 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C PHE* 4.8 3.8 - - - -
109C SER 3.6 6.3 - - - -
110C PHE* 4.5 7.7 - - - -
155C THR* 1.3 73.6 - - - +
157C ARG* 1.3 64.7 + - - +
166C PHE 3.9 0.3 - - - +
167C ASP* 3.2 6.4 - - - +
168C VAL* 3.0 34.0 + - - +
504C C8E 4.4 16.8 - - - +
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Residues in contact with ARG 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C GLY 5.2 4.8 + - - -
103C ALA* 4.6 13.5 - - - +
107C LYS 3.5 1.0 - - - +
108C PHE* 3.4 11.9 - - - -
109C SER* 2.8 56.6 + - - +
111C GLU* 2.7 47.4 + - - +
155C THR* 3.5 19.4 - - - +
156C GLY* 1.3 78.3 - - - +
158C TYR* 1.3 62.3 + - - +
159C ASN 4.2 0.2 - - - -
165C GLN* 3.5 31.5 - - - +
166C PHE 3.5 2.9 - - - +
167C ASP* 4.1 16.1 - - + +
229C ARG* 6.0 0.8 - - - +
403C PRO* 5.3 1.4 - - - +
405C TYR* 5.6 2.8 + - - -
504C C8E 4.7 0.9 - - - +
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Residues in contact with TYR 158 (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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107C LYS* 3.4 35.4 - - + +
108C PHE* 4.1 30.1 - + + -
157C ARG* 1.3 74.1 - - - +
159C ASN* 1.3 75.7 + - - +
160C LEU* 4.3 24.9 - - + +
165C GLN* 3.3 7.5 - - - -
166C PHE* 2.9 44.6 + + + +
503C C8E 4.5 31.9 - - + -
504C C8E 4.9 4.9 - - + -
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Residues in contact with ASN 159 (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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102C PHE* 4.0 3.6 - - - -
103C ALA* 3.1 31.3 + - + +
104C GLY* 3.6 12.9 - - - -
105C ASN 3.6 5.7 - - - +
106C GLY 3.3 32.7 + - - +
107C LYS* 3.1 15.3 + - - +
157C ARG* 4.2 0.6 - - - +
158C TYR* 1.3 84.1 - - - +
160C LEU* 1.3 70.2 + - - +
161C ASP 3.9 1.8 + - - +
162C ASN* 3.1 32.0 + - - +
163C ARG 3.6 0.9 + - - -
164C TRP 3.2 13.6 - - - +
165C GLN* 4.1 8.3 - - - +
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Residues in contact with LEU 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C LYS* 6.5 0.2 - - + -
158C TYR* 4.0 21.7 + - + +
159C ASN* 1.3 73.9 + - - +
161C ASP* 1.3 93.7 + - - +
162C ASN 3.4 0.4 - - - -
163C ARG* 3.3 13.7 + - - +
164C TRP* 3.1 33.2 + - + +
166C PHE* 4.5 18.6 - - + -
503C C8E 4.1 38.1 - - + +
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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
------------------------------------------------------------
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