Contacts of the helix formed by residues 157 - 178 (chain B) in PDB entry 4KZZ
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 157 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B ALA* 1.3 75.6 - - - +
158B HIS* 1.3 68.8 + - + +
159B GLN* 3.2 25.3 + - + +
160B GLN* 2.6 41.4 + - + +
161B VAL* 3.2 10.1 + - - +
205B TYR* 4.9 0.2 - - - -
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Residues in contact with HIS 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B ALA 4.1 0.4 + - - -
157B GLN* 1.3 74.8 - - + +
159B GLN* 1.3 69.7 + - + +
161B VAL* 3.3 6.1 + - + +
162B ARG* 3.2 28.1 + - + +
165B ARG* 4.5 17.7 + - - -
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Residues in contact with GLN 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B GLN* 4.2 21.4 + - + +
158B HIS* 1.3 80.0 - - + +
160B GLN* 1.3 66.6 + - + +
162B ARG* 3.3 23.2 + - - +
163B GLN* 3.1 20.8 + - - +
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Residues in contact with GLN 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B ALA* 2.7 25.1 - - + +
157B GLN* 2.6 42.7 + - + +
159B GLN* 1.3 78.1 - - + +
161B VAL* 1.3 53.1 + - - +
163B GLN* 2.9 8.1 + - - +
164B ILE* 2.7 46.8 + - + +
204B ILE* 3.9 20.0 + - + +
205B TYR* 2.2 40.6 - - + -
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Residues in contact with VAL 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B THR* 4.2 10.1 - - + -
120B MET 5.8 0.4 - - - +
121B ILE* 3.8 40.4 - - + -
156B ALA* 4.0 13.5 - - + +
157B GLN 3.2 15.0 + - - +
158B HIS* 3.3 8.9 + - + +
160B GLN* 1.3 73.5 - - - +
162B ARG* 1.3 54.6 + - - +
164B ILE* 3.7 8.0 - - - +
165B ARG* 2.7 65.9 + - - +
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Residues in contact with ARG 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B HIS* 3.2 16.6 + - + +
159B GLN* 3.6 28.9 + - - +
161B VAL* 1.3 79.3 - - - +
163B GLN* 1.3 60.2 + - - +
165B ARG* 3.8 16.7 - - - +
166B LYS* 3.3 27.2 + - - +
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Residues in contact with GLN 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159B GLN 3.1 11.6 + - - +
160B GLN* 2.9 8.7 + - - +
162B ARG* 1.3 74.8 - - - +
164B ILE* 1.3 66.0 + - - +
166B LYS* 3.4 24.8 + - - +
167B LYS* 3.1 38.8 + - - +
204B ILE* 3.9 22.7 - - + -
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Residues in contact with ILE 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B ILE* 4.0 35.0 - - + -
156B ALA* 5.3 1.1 - - + -
160B GLN* 2.7 32.9 + - + +
161B VAL* 3.7 5.4 - - - +
163B GLN* 1.3 73.4 - - - +
165B ARG* 1.3 62.4 + - - +
167B LYS* 3.1 8.5 + - - +
168B MET* 3.0 27.7 + - + +
201B CYS* 4.1 18.2 - - - -
204B ILE* 3.5 28.3 - - + -
205B TYR* 4.1 19.1 - - + -
207B LEU* 4.3 19.5 - - + -
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Residues in contact with ARG 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B ILE* 4.4 8.1 - - + -
122B GLU 3.3 22.8 + - - +
123B ALA* 3.4 27.5 - - + +
158B HIS* 4.5 17.0 - - - -
161B VAL* 2.7 53.2 + - - +
162B ARG* 3.8 15.4 - - - +
164B ILE* 1.3 70.8 - - - +
166B LYS* 1.3 61.2 + - - +
168B MET* 3.3 3.9 + - - +
169B MET* 2.8 32.4 + - - +
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Residues in contact with LYS 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162B ARG* 3.3 15.6 + - - +
163B GLN* 3.5 30.7 - - - +
164B ILE 3.3 0.4 - - - -
165B ARG* 1.3 80.9 - - - +
167B LYS* 1.3 56.1 + - - +
169B MET* 3.3 22.6 + - + +
170B GLU* 2.9 42.2 + - - +
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Residues in contact with LYS 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B GLN* 3.1 26.6 + - - +
164B ILE* 3.1 10.6 + - - +
166B LYS* 1.3 76.6 - - - +
168B MET* 1.3 63.5 + - - +
170B GLU* 3.5 16.6 + - + +
171B ILE* 3.1 34.6 + - + +
200B ALA* 4.0 30.6 + - + +
201B CYS* 4.4 12.8 - - - -
203B SER* 5.1 3.2 + - - -
204B ILE* 4.2 19.1 - - + +
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Residues in contact with MET 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B ILE* 4.9 9.9 - - + +
122B GLU 4.8 0.9 - - - -
123B ALA* 3.5 26.9 - - + +
139B CYS* 2.8 47.8 - - + -
140B VAL* 3.8 22.4 - - - +
141B GLY* 4.6 2.9 - - - +
164B ILE* 3.0 18.3 + - + +
165B ARG* 3.6 7.9 - - - +
167B LYS* 1.3 73.0 - - - +
169B MET* 1.3 63.9 + - - +
171B ILE* 3.3 9.1 + - - +
172B MET* 3.0 24.5 + - + +
197B ILE* 4.2 30.4 - - + +
201B CYS* 5.1 1.6 - - - -
210B VAL* 5.3 1.8 - - + -
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Residues in contact with MET 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B ALA* 4.7 6.7 - - + +
124B HIS 5.3 2.0 - - - +
125B VAL* 3.2 30.7 - - + +
165B ARG 2.8 20.6 + - - +
166B LYS* 3.7 25.1 - - + +
168B MET* 1.3 74.5 - - - +
170B GLU* 1.3 64.8 + - + +
172B MET* 3.4 1.0 + - - -
173B THR* 3.0 31.8 + - + +
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Residues in contact with GLU 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B LYS* 2.9 27.7 + - + +
167B LYS* 3.9 19.3 - - + +
169B MET* 1.3 81.2 - - + +
171B ILE* 1.3 60.3 + - + +
173B THR* 3.0 8.1 + - - +
174B ARG* 2.9 32.2 + - - +
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Residues in contact with ILE 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167B LYS* 3.1 21.8 + - + +
168B MET* 3.7 3.8 - - - +
169B MET 3.2 0.2 - - - -
170B GLU* 1.3 75.3 - - + +
172B MET* 1.3 56.2 + - - +
174B ARG* 2.9 21.4 + - - +
175B GLU* 2.5 44.7 + - + +
193B ILE* 4.4 21.3 - - + -
196B ASP* 3.8 26.0 - - + +
197B ILE* 4.0 26.2 - - + -
200B ALA* 3.9 27.4 - - + -
201B CYS* 5.8 0.2 - - - -
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Residues in contact with MET 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B ALA 5.8 0.2 - - - +
124B HIS* 6.4 0.2 - - - -
125B VAL* 4.4 16.2 - - + +
127B VAL* 4.7 3.0 - - + +
137B LEU* 2.8 65.1 - - + +
139B CYS* 3.4 33.9 - - - -
168B MET* 3.0 17.9 + - + +
169B MET* 3.9 4.5 - - - +
171B ILE* 1.3 77.4 - - + +
173B THR* 1.3 61.9 + - - +
175B GLU* 3.5 4.7 + - - +
176B VAL* 3.1 32.6 + - + +
193B ILE* 4.9 6.7 - - + -
197B ILE* 5.6 0.2 - - + -
212B VAL* 4.0 13.0 - - + -
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Residues in contact with THR 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125B VAL* 2.9 37.2 - - + -
127B VAL* 4.2 16.0 - - + +
169B MET* 3.0 17.5 + - + +
170B GLU* 3.0 14.7 + - - +
172B MET* 1.3 71.3 - - - +
174B ARG* 1.3 73.2 + - - +
175B GLU 3.2 0.2 + - - -
176B VAL 3.2 0.2 + - - -
177B GLN* 3.0 34.4 + - - +
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Residues in contact with ARG 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170B GLU* 2.9 21.9 + - + +
171B ILE* 3.3 18.0 - - - +
173B THR* 1.3 79.7 + - - +
175B GLU* 1.3 82.1 + - - +
176B VAL 3.5 0.7 + - - -
177B GLN* 4.4 6.3 - - - +
178B THR* 3.4 23.0 + - - +
196B ASP* 2.7 31.9 + - - -
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Residues in contact with GLU 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B ILE* 2.5 22.3 + - + +
172B MET* 4.2 3.8 - - - +
173B THR 3.2 0.2 - - - -
174B ARG* 1.3 110.5 + - - +
176B VAL* 1.3 63.6 + - + +
178B THR* 3.7 7.2 + - - +
179B ASN* 4.7 1.9 + - - +
184B VAL* 4.8 3.6 - - - +
187B LYS* 2.5 55.8 + - + +
193B ILE* 2.8 37.2 - - + -
196B ASP* 3.7 6.6 - - - +
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Residues in contact with VAL 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B VAL* 3.2 26.0 - - + -
128B LYS 4.7 0.2 - - - -
129B THR* 3.6 26.5 - - + -
135B LEU* 4.4 0.9 - - + -
137B LEU* 3.4 29.6 - - + -
172B MET* 3.1 20.9 - - + +
173B THR 3.2 1.6 + - - -
175B GLU* 1.3 84.6 - - + +
177B GLN* 1.3 71.0 + - - +
178B THR 3.4 2.6 + - - -
179B ASN 3.1 16.3 - - - +
184B VAL* 4.2 17.7 - - + -
193B ILE* 6.4 0.4 - - + -
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Residues in contact with GLN 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B VAL* 4.0 9.0 - - + +
128B LYS 3.9 14.9 - - - +
129B THR 4.0 1.9 - - - -
130B THR* 3.0 23.6 + - - +
173B THR* 3.0 22.9 + - - +
174B ARG* 4.4 5.8 - - - +
176B VAL* 1.3 80.1 - - - +
178B THR* 1.3 66.6 + - + +
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Residues in contact with THR 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B THR* 3.8 3.4 - - - -
174B ARG 3.4 14.8 + - - +
175B GLU* 3.7 12.6 + - - +
176B VAL 3.6 4.2 - - - +
177B GLN* 1.3 83.4 - - + +
179B ASN* 1.3 80.2 + - - +
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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