Contacts of the strand formed by residues 143 - 154 (chain C) in PDB entry 3IXK
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 VAL 143 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131C ASP 3.5 1.0 - - - +
132C LEU* 3.2 8.3 - - - -
133C VAL* 2.8 35.7 + - + +
141C VAL* 4.6 1.6 - - + -
142C THR* 1.3 80.4 - - - +
144C ARG* 1.3 61.0 + - - +
145C ALA* 3.7 8.9 + - + -
184C PHE* 3.7 33.2 - - + -
187C SER* 4.7 0.9 - - - -
188C LEU* 3.9 28.9 - - + +
191C GLN* 3.3 17.9 - - + +
192C THR* 3.6 28.0 - - + -
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Residues in contact with ARG 144 (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 THR* 2.8 47.7 + - - +
109C ARG* 3.5 46.1 - - - +
130C THR* 2.8 44.9 + - + -
131C ASP* 3.4 5.6 - - - +
132C LEU* 4.0 21.8 - - + +
143C VAL* 1.3 70.0 - - - +
145C ALA* 1.3 60.4 - - - +
187C SER* 3.9 5.2 + - - -
191C GLN* 2.7 40.3 + - - +
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Residues in contact with ALA 145 (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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86C PHE* 4.7 0.7 - - + -
130C THR* 3.2 23.9 - - - -
131C ASP 3.0 12.1 + - - +
133C VAL* 4.0 15.7 - - + -
143C VAL* 3.7 4.2 + - + -
144C ARG* 1.3 76.0 - - - +
146C ASN* 1.3 70.4 + - - +
147C ILE* 3.4 3.3 + - - +
184C PHE* 3.7 34.3 - - + -
187C SER* 4.3 9.9 - - - +
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Residues in contact with ASN 146 (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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86C PHE* 3.4 28.3 + - - +
111C LEU* 3.6 13.9 - - + +
128C LEU* 5.7 0.4 - - + -
129C GLY 3.5 3.6 - - - +
130C THR* 3.4 20.9 - - - +
145C ALA* 1.3 73.1 - - - +
147C ILE* 1.3 60.5 + - - +
180C SER 5.3 0.2 + - - -
181C LEU* 3.6 28.1 - - + +
182C GLU* 3.0 52.0 + - - +
184C PHE 5.6 2.0 + - - +
187C SER* 4.9 0.8 + - - -
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Residues in contact with ILE 147 (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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68C VAL* 4.1 14.6 - - + -
86C PHE* 3.7 18.6 - - + +
88C VAL* 4.2 26.0 - - + -
100C TYR* 4.3 18.8 - - + +
128C LEU* 3.7 5.6 - - - +
129C GLY* 2.7 36.3 + - - +
131C ASP* 3.7 29.4 - - + +
133C VAL* 4.0 17.9 - - + -
145C ALA 3.6 8.5 - - - +
146C ASN* 1.3 81.0 - - - +
148C ALA* 1.3 74.2 + - - +
149C ALA 4.0 0.7 + - - -
181C LEU* 6.3 0.4 - - - -
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Residues in contact with ALA 148 (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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85C ASN* 5.4 3.4 - - - +
86C PHE 3.1 14.4 + - - +
87C ALA* 3.3 1.4 - - + +
88C VAL 3.1 25.8 + - - +
115C VAL* 3.9 13.5 - - + -
124C TRP* 3.6 36.3 - - + -
127C GLU 3.7 4.9 - - - -
128C LEU* 4.1 8.7 - - + -
147C ILE* 1.3 74.7 - - - +
149C ALA* 1.3 62.9 + - - +
150C ILE 3.4 1.3 + - - -
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Residues in contact with ALA 149 (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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88C VAL* 3.9 4.9 - - - -
90C ALA* 3.6 13.9 - - + -
100C TYR* 4.9 5.2 - - + -
102C ARG* 3.6 41.7 - - - +
126C GLY* 3.2 2.9 - - - -
127C GLU* 2.8 37.6 + - + +
147C ILE 4.0 2.0 + - - -
148C ALA* 1.3 70.2 - - - +
150C ILE* 1.3 65.1 + - - +
151C THR* 3.2 3.5 + - - +
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Residues in contact with ILE 150 (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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87C ALA* 4.0 19.1 - - + -
88C VAL* 2.8 33.4 + - - +
89C GLY* 4.1 2.1 - - - +
90C ALA* 3.2 20.3 + - - +
91C ALA* 4.0 6.6 + - - +
124C TRP* 3.8 37.9 - - + -
125C GLU 3.6 6.1 - - - +
126C GLY* 4.3 0.7 - - - -
148C ALA 4.1 0.2 - - - +
149C ALA* 1.3 71.0 - - - +
151C THR* 1.3 59.9 - - - +
152C GLU 3.8 22.4 - - - +
153C SER* 4.3 7.2 - - - -
156C PHE* 3.8 22.2 - - + -
157C PHE* 4.0 13.0 - - + -
165C GLY* 5.5 0.4 - - - -
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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
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90C ALA* 5.9 0.9 - - + -
91C ALA* 4.9 15.6 - - + +
102C ARG* 4.7 8.3 - - - +
125C GLU* 3.0 15.2 + - - +
126C GLY* 3.3 15.9 + - - -
127C GLU* 2.9 36.5 - - + +
149C ALA 3.2 10.5 + - - +
150C ILE* 1.3 73.1 - - - +
152C GLU* 1.3 79.8 + - - +
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Residues in contact with GLU 152 (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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93C HIS* 6.3 1.3 - - - -
124C TRP* 3.4 3.5 - - - +
125C GLU* 3.0 51.1 + - + +
150C ILE* 3.8 2.2 - - - +
151C THR* 1.3 90.7 + - - +
153C SER* 1.3 65.5 + - - +
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Residues in contact with SER 153 (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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93C HIS* 3.4 29.5 + - - -
123C LYS 3.4 11.0 - - - -
124C TRP* 3.9 9.2 - - - +
150C ILE* 4.3 1.8 - - - -
152C GLU* 1.3 81.5 - - - +
154C ASP* 1.3 62.2 + - - +
155C LYS 4.4 0.4 + - - -
156C PHE* 4.3 8.1 + - - +
157C PHE* 3.6 25.0 + - - -
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Residues in contact with ASP 154 (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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122C GLY* 3.5 0.9 - - - -
123C LYS* 2.9 65.1 + - + +
153C SER* 1.3 74.6 - - - +
155C LYS* 1.3 95.4 + - - +
156C PHE 3.0 5.0 + - - -
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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
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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