Contacts of the helix formed by residues 145 - 166 (chain C) in PDB entry 4KYI
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 GLN 145 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141C ILE* 4.2 1.8 - - - -
142C PRO* 2.6 23.5 + - + +
144C GLU* 1.3 101.6 + - + +
146C GLN* 1.3 54.9 + - - +
147C MET 3.2 5.2 - - - -
148C ASN* 2.8 34.7 + - - +
149C TYR 3.3 17.7 + - - -
223C GLU* 3.0 36.8 + - - +
224C LEU* 3.6 29.5 - - + +
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Residues in contact with GLN 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C ILE* 2.9 52.2 + - + +
142C PRO 3.0 9.5 + - - +
143C PRO* 3.6 18.2 + - + +
145C GLN* 1.3 77.1 - - - +
147C MET* 1.3 61.9 + - - +
148C ASN 3.3 0.7 - - - -
149C TYR* 3.9 7.8 - - + -
150C GLY* 3.5 14.6 + - - -
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Residues in contact with MET 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C PRO 4.4 7.7 + - - +
144C GLU 5.5 3.4 - - - +
145C GLN 3.2 1.0 - - - -
146C GLN* 1.3 78.6 - - - +
148C ASN* 1.3 72.6 + - - +
150C GLY* 4.0 0.7 + - - -
151C ILE* 3.2 50.2 + - + +
220C ARG* 5.0 7.6 - - - +
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Residues in contact with ASN 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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144C GLU 5.1 2.5 - - - +
145C GLN* 2.8 40.1 + - + +
146C GLN 3.3 0.2 - - - -
147C MET* 1.3 90.2 - - - +
149C TYR* 1.3 64.7 + - - +
151C ILE* 3.4 3.1 + - - +
152C LEU* 3.1 28.8 + - - +
220C ARG* 3.9 46.5 + - + +
223C GLU* 3.0 19.6 + - - -
224C LEU* 4.7 2.7 - - + -
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Residues in contact with TYR 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C LEU* 3.5 38.5 + - + -
137C VAL* 5.0 7.0 - - + -
139C GLN* 3.5 19.1 + - + -
141C ILE* 3.5 36.3 - - + -
145C GLN 3.3 12.9 + - - +
146C GLN* 4.2 13.2 - - + +
147C MET 3.5 0.2 - - - -
148C ASN* 1.3 79.3 - - - +
150C GLY* 1.3 66.1 + - - +
152C LEU* 3.3 3.0 + - - +
153C LYS* 3.0 63.5 + - + +
224C LEU* 3.6 19.4 - - + +
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Residues in contact with GLY 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C GLN* 3.5 13.6 + - - +
147C MET 4.0 1.7 + - - -
148C ASN 3.3 0.4 - - - -
149C TYR* 1.3 84.6 - - - +
151C ILE* 1.3 55.7 + - - +
153C LYS* 4.4 1.5 - - - +
154C GLN* 3.0 36.6 + - - +
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Residues in contact with ILE 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C MET* 3.2 34.3 + - - +
148C ASN 3.4 6.6 + - - +
149C TYR 3.3 0.4 - - - -
150C GLY* 1.3 75.4 - - - +
152C LEU* 1.3 63.4 + - - +
154C GLN* 4.1 5.6 - - - +
155C LYS* 3.1 51.9 + - - +
209C GLU* 4.0 22.9 - - + +
217C ASP* 4.8 1.1 - - - +
220C ARG* 3.7 35.2 - - - +
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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
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130C MET* 4.1 11.7 - - + -
134C LEU* 4.0 16.2 - - + -
148C ASN 3.1 17.9 + - - +
149C TYR* 3.8 3.8 - - - +
151C ILE* 1.3 77.6 - - - +
153C LYS* 1.3 60.4 + - - +
155C LYS* 3.3 6.6 + - - +
156C ILE* 3.2 27.8 + - + +
213C LEU* 5.0 4.1 - - + +
217C ASP* 3.7 40.6 - - + +
220C ARG* 4.0 11.0 - - + +
221C LEU* 3.8 39.3 - - + +
224C LEU* 4.1 19.3 - - + -
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Residues in contact with LYS 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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131C LYS* 4.6 19.5 - - - +
134C LEU* 3.9 20.6 - - + +
135C GLU* 6.2 2.9 - - - -
149C TYR* 3.0 54.5 + - + +
150C GLY* 4.4 1.8 - - - +
152C LEU* 1.3 72.5 - - - +
154C GLN* 1.3 61.2 + - - +
155C LYS 3.2 1.6 - - - -
156C ILE* 3.5 6.4 + - + +
157C ALA* 2.9 28.5 + - + +
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Residues in contact with GLN 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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150C GLY 3.0 22.4 + - - +
151C ILE* 4.1 5.2 - - - +
153C LYS* 1.3 77.7 - - - +
155C LYS* 1.3 62.5 + - + +
157C ALA* 3.6 8.6 - - + +
158C LEU* 3.2 20.3 + - - +
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Residues in contact with LYS 155 (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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151C ILE* 3.1 29.4 + - + +
152C LEU* 3.5 9.2 - - - +
153C LYS 3.2 0.4 - - - -
154C GLN* 1.3 75.6 - - + +
156C ILE* 1.3 60.3 + - - +
157C ALA 3.1 1.1 - - - -
158C LEU* 3.1 7.1 + - - +
159C TYR* 2.9 35.9 + - + -
209C GLU* 3.0 23.8 + - - -
210C ASN 2.9 15.1 + - - -
211C PRO* 3.7 16.2 - - + +
212C ARG 2.8 21.4 + - - +
213C LEU* 4.0 17.0 - - + -
214C THR* 3.7 4.4 - - - +
217C ASP* 2.3 40.8 + - - +
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Residues in contact with ILE 156 (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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127C MET* 4.1 22.4 - - + +
130C MET* 4.1 8.5 - - + +
131C LYS* 3.7 49.8 - - + +
134C LEU* 3.9 18.8 - - + -
152C LEU* 3.2 17.6 + - + +
153C LYS* 3.9 8.3 - - + +
155C LYS* 1.3 75.6 - - - +
157C ALA* 1.3 52.7 + - - +
159C TYR* 3.6 6.2 - - - +
160C GLU* 2.7 54.1 + - + +
213C LEU* 4.9 8.7 - - + -
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Residues in contact with ALA 157 (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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153C LYS* 2.9 19.4 + - + +
154C GLN* 3.6 11.4 - - + +
155C LYS 3.1 0.2 - - - -
156C ILE* 1.3 76.0 - - - +
158C LEU* 1.3 53.7 + - - +
160C GLU* 3.3 7.1 + - - +
161C ASP* 2.7 39.3 + - - +
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Residues in contact with LEU 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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154C GLN 3.2 11.2 + - - +
155C LYS* 3.1 9.1 + - - +
157C ALA* 1.3 77.6 - - - +
159C TYR* 1.3 71.6 + - + +
161C ASP* 3.8 4.6 - - + +
162C LYS* 3.3 48.3 + - + +
196C ILE* 3.6 39.7 - - + +
211C PRO* 4.2 15.3 - - + +
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Residues in contact with TYR 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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123C ASP* 2.9 57.3 + - + -
124C VAL* 5.5 0.4 - - + -
127C MET* 3.5 29.6 - - + -
155C LYS* 2.9 26.9 + - + +
156C ILE* 3.6 6.3 - - - +
158C LEU* 1.3 93.1 - - + +
160C GLU* 1.3 62.5 + - - +
162C LYS* 3.5 2.6 + - - +
163C LEU* 3.4 25.4 + - + +
193C LEU* 4.5 18.9 - - + +
196C ILE* 4.7 4.9 - - + -
211C PRO 3.9 19.3 - - - -
212C ARG* 3.2 33.0 - - + +
213C LEU* 3.3 17.0 + - + -
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Residues in contact with GLU 160 (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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127C MET* 3.8 23.1 - - + +
131C LYS* 3.2 40.4 - - - +
156C ILE* 2.7 27.6 + - + +
157C ALA* 3.9 4.9 - - - +
159C TYR* 1.3 73.7 - - - +
161C ASP* 1.3 61.1 + - - +
163C LEU* 3.5 6.9 + - - +
164C SER* 3.1 23.9 + - - -
168C ILE 5.1 0.2 - - - +
170C ILE 4.3 11.8 - - - +
171C ASN* 5.9 0.7 - - - +
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Residues in contact with ASP 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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157C ALA 2.7 23.2 + - - +
158C LEU* 3.8 7.0 - - + +
160C GLU* 1.3 71.2 - - - +
162C LYS* 1.3 65.0 + - + +
164C SER* 2.7 24.5 + - - -
165C ARG* 2.6 51.1 + - - +
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Residues in contact with LYS 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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158C LEU* 3.3 39.3 + - + +
159C TYR 3.9 3.8 - - - +
160C GLU 3.4 0.2 - - - -
161C ASP* 1.3 84.1 - - + +
163C LEU* 1.3 61.5 + - - +
165C ARG* 3.4 24.6 + - + +
166C ALA* 3.5 3.5 + - - +
192C ALA* 3.2 44.9 - - + +
193C LEU* 4.6 7.0 - - + -
195C SER* 3.3 24.6 + - - +
196C ILE* 4.6 9.9 - - + +
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Residues in contact with LEU 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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124C VAL* 4.5 9.0 - - + -
127C MET* 3.6 30.5 - - + -
159C TYR 3.4 11.6 + - - +
160C GLU* 3.7 7.6 - - - +
161C ASP 3.1 0.6 - - - -
162C LYS* 1.3 75.2 - - - +
164C SER* 1.3 52.2 + - - +
165C ARG 3.1 1.8 - - - -
166C ALA* 3.0 4.7 + - - +
167C GLY 2.7 13.5 + - - -
168C ILE* 2.6 54.2 + - + +
170C ILE* 4.0 22.0 - - + +
189C LEU* 3.8 26.7 - - + -
192C ALA* 4.5 5.6 - - + -
193C LEU* 4.2 17.9 - - + -
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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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160C GLU 3.1 12.0 + - - -
161C ASP* 2.7 27.4 + - - -
163C LEU* 1.3 75.5 - - - +
165C ARG* 1.3 62.6 + - - +
167C GLY* 3.2 13.3 + - - +
168C ILE 3.8 7.5 + - - +
169C VAL* 5.8 6.5 - - - -
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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
----------------------------------------------------------
161C ASP* 2.6 55.0 + - - +
162C LYS* 3.4 22.7 - - + +
163C LEU 3.1 0.2 - - - -
164C SER* 1.3 78.3 + - - +
166C ALA* 1.3 58.8 + - - +
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Residues in contact with ALA 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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162C LYS 3.5 8.4 + - - +
163C LEU 3.0 7.2 + - - +
165C ARG* 1.3 76.7 - - - +
167C GLY* 1.3 62.1 + - - +
168C ILE* 4.3 5.1 - - + +
188C LYS* 3.2 57.8 - - + +
192C ALA* 4.5 4.5 - - + -
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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
------------------------------------------------------------
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