Contacts of the helix formed by residues 132 - 146 (chain C) in PDB entry 3KQ4
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 PHE 132 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120C TRP* 4.1 16.8 - + - -
122C PRO* 4.1 19.3 - - + -
127C ALA* 6.5 0.2 - - + -
128C GLU 4.5 3.4 - - - -
129C ALA* 3.1 17.6 + - - +
130C SER 2.8 1.4 - - - -
131C ALA* 1.3 87.1 - - + +
133C TYR* 1.3 61.5 + - - +
134C GLY 3.3 2.5 - - - -
135C PRO* 3.4 4.8 - - - +
136C SER* 2.8 29.7 + - - +
157C PHE* 3.9 20.1 - + + -
160C THR* 3.2 31.4 - - - -
161C LEU* 3.6 36.8 - - + -
164C ASN* 4.1 26.9 - - + -
172C THR* 3.5 10.5 - - + -
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Residues in contact with TYR 133 (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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94C LEU* 5.8 1.0 - - + +
130C SER* 2.7 23.8 + - - +
132C PHE* 1.3 72.1 - - - +
134C GLY* 1.3 66.5 + - - +
136C SER* 3.3 13.4 + - - -
137C LEU* 3.4 31.2 + - + +
171C ASP* 4.0 9.6 - - + -
172C THR* 3.3 36.9 - - - +
175C MET* 3.6 38.6 - - + +
228C LEU* 4.0 12.9 - - + +
266C MET* 5.6 0.5 - - - +
270C GLN* 3.6 17.5 + - - -
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Residues in contact with GLY 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C ILE* 3.9 12.1 - - - +
90C GLY* 4.0 12.4 - - - -
130C SER 4.1 2.2 + - - -
131C ALA 4.6 0.2 + - - -
133C TYR* 1.3 84.3 - - - +
135C PRO* 1.3 68.0 - - - +
137C LEU* 3.1 19.0 + - - +
138C ALA 3.4 7.4 + - - -
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Residues in contact with PRO 135 (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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89C ILE* 4.2 14.8 - - + -
117C MET* 4.5 5.6 - - + -
120C TRP* 3.8 41.5 - - + +
131C ALA 3.4 21.3 - - - +
132C PHE* 3.4 11.9 - - - +
134C GLY* 1.3 86.8 - - - +
136C SER* 1.3 64.0 + - - +
138C ALA* 3.2 2.9 + - + +
139C ILE* 3.0 30.9 + - - +
157C PHE* 4.1 11.9 - - + -
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Residues in contact with SER 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C PHE* 2.8 22.5 + - - +
133C TYR* 3.5 7.2 - - - -
134C GLY 3.1 0.4 - - - -
135C PRO* 1.3 76.4 - - - +
137C LEU* 1.3 63.8 + - - +
139C ILE 3.4 0.2 + - - -
140C LEU* 2.9 25.1 + - - +
157C PHE* 3.4 13.2 - - - -
172C THR 4.5 0.3 + - - -
175C MET* 3.7 14.7 - - - +
176C ALA* 3.3 37.8 + - - +
179C ALA* 3.5 10.9 - - - +
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Residues in contact with LEU 137 (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 GLY* 4.3 15.7 - - - +
93C GLY* 4.2 2.3 - - - -
94C LEU* 3.5 39.9 - - + +
97C MET* 4.4 10.6 - - + +
133C TYR* 3.4 47.9 + - + +
134C GLY* 3.1 10.3 + - - +
136C SER* 1.3 78.8 - - - +
138C ALA* 1.3 63.4 + - - +
140C LEU* 3.2 7.5 + - + +
141C ALA* 3.0 26.3 + - - +
175C MET* 3.3 33.4 - - + -
280C TYR* 4.8 3.8 - - + -
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Residues in contact with ALA 138 (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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89C ILE* 3.7 25.9 + - + +
93C GLY* 4.4 0.7 - - - -
113C LEU* 3.9 23.9 - - + +
117C MET* 3.3 31.0 - - + -
134C GLY 3.4 2.0 + - - -
135C PRO 3.2 4.3 + - - +
137C LEU* 1.3 79.3 - - - +
139C ILE* 1.3 65.4 + - - +
141C ALA* 3.2 1.7 + - - +
142C LEU* 2.9 26.4 + - - +
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Residues in contact with ILE 139 (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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117C MET* 4.0 13.2 - - + -
120C TRP* 5.8 0.4 - - + -
135C PRO 3.0 17.8 + - - +
136C SER* 3.8 3.4 - - - +
138C ALA* 1.3 74.6 - - - +
140C LEU* 1.3 59.3 + - - +
142C LEU* 3.7 5.8 - - - +
143C CYS* 2.7 29.8 + - - +
150C THR* 4.2 15.4 - - + +
153C ILE* 4.0 13.2 - - + +
154C ALA* 4.0 21.1 - - + -
157C PHE* 3.6 43.3 - - + -
179C ALA* 4.2 15.5 - - + +
180C LEU* 5.4 0.9 - - + -
183C MET* 4.6 8.5 - - + -
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Residues in contact with LEU 140 (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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97C MET* 3.8 26.9 - - + -
136C SER 2.9 18.4 + - - +
137C LEU* 3.2 10.9 + - + +
139C ILE* 1.3 78.4 - - - +
141C ALA* 1.3 60.6 + - - +
143C CYS* 3.4 4.0 + - - +
144C GLN* 3.1 27.8 + - - +
175C MET* 5.5 1.6 - - - +
178C LEU* 4.0 27.4 - - + +
179C ALA* 4.0 11.6 - - - +
182C CYS* 4.1 7.9 - - + -
280C TYR* 4.0 24.2 - - + +
281C LEU* 4.0 27.1 - - + -
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Residues in contact with ALA 141 (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 GLY* 3.5 32.5 - - - +
96C ILE* 4.6 13.9 - - + +
97C MET* 4.0 19.5 - - + -
113C LEU* 5.0 0.2 - - + -
137C LEU 3.0 15.2 + - - +
138C ALA 3.8 2.0 - - - +
140C LEU* 1.3 77.3 - - - +
142C LEU* 1.3 64.7 + - - +
144C GLN* 3.4 6.2 + - - +
145C LYS* 3.4 25.1 + - - +
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Residues in contact with LEU 142 (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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96C ILE* 4.8 1.6 - - + -
110C VAL* 3.9 25.1 - - + +
113C LEU* 3.9 24.9 - - + -
114C GLN* 3.7 45.7 - - - +
117C MET* 3.9 30.5 - - + -
138C ALA 2.9 15.7 + - - +
139C ILE* 3.7 5.8 - - - +
141C ALA* 1.3 77.9 - - - +
143C CYS* 1.3 66.4 + - - +
144C GLN 3.0 1.8 - - - -
145C LYS* 2.9 4.3 + - - +
146C ASN* 2.8 22.2 + - - +
150C THR* 3.4 12.0 + - + +
153C ILE* 4.7 4.9 - - + -
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Residues in contact with CYS 143 (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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139C ILE 2.7 21.9 + - - +
140C LEU* 3.8 2.7 - - - +
142C LEU* 1.3 71.3 - - - +
144C GLN* 1.3 60.5 + - - +
146C ASN 3.5 1.3 + - - -
147C SER* 3.2 29.4 + - - +
150C THR* 3.6 12.3 + - + -
179C ALA 5.1 0.4 - - - +
182C CYS* 2.1 56.5 - - + -
183C MET* 3.8 28.3 - - + -
186C LYS* 4.9 1.3 - - - +
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Residues in contact with GLN 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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97C MET* 3.4 27.9 - - - +
100C THR* 5.7 1.0 - - - +
140C LEU* 3.1 25.1 + - - +
141C ALA* 3.6 6.0 - - - +
142C LEU 3.0 0.8 - - - -
143C CYS* 1.3 79.1 - - - +
145C LYS* 1.3 71.6 + - - +
182C CYS* 4.7 10.1 - - - -
280C TYR 3.2 19.2 + - - -
281C LEU* 3.7 14.7 + - + +
283C VAL* 3.9 2.1 - - - +
284C PRO* 2.9 46.7 - - + +
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Residues in contact with LYS 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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96C ILE* 4.2 12.6 - - + -
97C MET* 6.2 0.4 - - - +
100C THR* 2.9 41.2 + - - +
106C PRO* 4.5 8.5 - - + +
110C VAL* 3.8 37.0 - - + -
114C GLN* 5.7 0.9 - - - +
141C ALA 3.4 12.3 + - - +
142C LEU 2.9 5.7 + - - +
143C CYS 4.0 0.4 - - - -
144C GLN* 1.3 90.4 + - - +
146C ASN* 1.3 62.3 + - + +
147C SER 4.4 0.2 + - - -
284C PRO* 5.9 2.0 - - - +
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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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114C GLN* 4.9 8.1 - - - +
142C LEU 2.8 11.6 + - - +
143C CYS 3.5 3.1 - - - -
145C LYS* 1.3 78.9 - - + +
147C SER* 1.3 62.4 + - - +
148C GLU* 3.2 8.0 + - - +
149C ALA* 2.8 40.7 + - + +
150C THR* 2.6 28.3 + - - +
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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