Contacts of the helix formed by residues 151 - 174 (chain A) in PDB entry 1CJY
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 CYS 151 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ARG* 3.1 20.7 - - - +
150A LEU* 1.3 74.6 - - - +
152A ASP* 1.3 57.4 + - - +
153A GLN* 3.9 9.2 - - + +
154A GLU* 2.7 47.1 + - - +
155A LYS* 3.0 10.1 + - - +
352A TYR* 4.0 15.9 - - - -
353A GLU* 3.6 42.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ARG* 5.2 0.4 - - - +
150A LEU 4.0 1.0 + - - -
151A CYS* 1.3 70.8 - - - +
153A GLN* 1.3 62.5 + - + +
155A LYS* 3.8 18.4 + - - +
156A THR* 2.9 35.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A CYS* 2.9 8.7 + - + -
152A ASP* 1.3 80.7 - - + +
154A GLU* 1.3 57.8 + - - +
156A THR* 4.0 5.8 - - - -
157A PHE* 3.1 25.1 + - - +
316A LYS* 4.5 12.9 + - - +
352A TYR* 3.4 58.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A LEU* 3.7 29.8 - - + +
151A CYS* 2.7 28.0 + - - +
153A GLN* 1.3 72.2 - - - +
155A LYS* 1.3 65.3 + - - +
157A PHE* 2.9 9.2 + - + +
158A ARG* 2.9 24.5 + - + +
223A TYR* 2.8 21.6 + - + +
326A LEU* 3.7 20.7 - - + +
350A SER* 5.5 1.7 + - - -
352A TYR* 4.2 5.4 - - + -
353A GLU* 4.8 6.2 - - - +
563A ARG* 4.5 2.3 + - - -
566A ARG* 2.7 45.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A ALA* 4.3 12.4 - - - +
150A LEU* 3.2 41.4 + - + +
151A CYS 3.0 15.1 + - - +
152A ASP* 3.8 18.5 + - - +
154A GLU* 1.3 77.1 - - - +
156A THR* 1.3 61.0 + - - +
158A ARG* 3.2 12.7 + - - +
159A GLN* 2.8 44.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ASP* 2.9 23.0 + - - +
153A GLN* 4.0 6.1 - - - -
155A LYS* 1.3 73.3 - - - +
157A PHE* 1.3 61.9 + - - +
159A GLN* 3.8 12.4 + - + +
160A GLN* 2.8 35.1 + - + +
320A ASN 6.1 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A GLN 3.1 16.1 + - - +
154A GLU* 2.9 13.1 + - + +
156A THR* 1.3 78.6 - - - +
158A ARG* 1.3 63.0 + - + +
160A GLN* 3.6 3.3 - - - -
161A ARG* 2.9 51.6 + - + +
222A THR* 3.4 28.5 - - + -
223A TYR* 5.2 1.1 - + - -
319A VAL* 3.0 35.0 - - + -
322A ALA* 3.5 23.8 - - + +
324A CYS 2.9 29.8 - - - -
326A LEU* 3.3 28.7 - - + -
352A TYR* 4.2 7.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A LEU* 3.0 28.3 - - - +
154A GLU* 2.9 18.4 + - + +
155A LYS* 3.5 11.0 - - - +
157A PHE* 1.3 81.0 - - + +
159A GLN* 1.3 56.5 + - + +
161A ARG* 2.9 5.7 + - - +
162A LYS* 2.7 35.9 + - - +
189A VAL* 4.4 16.8 - - - +
222A THR* 4.8 12.4 - - + +
223A TYR* 3.5 18.6 + - - +
565A GLN 3.6 3.2 + - - -
566A ARG* 2.4 48.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A LYS* 2.8 32.9 + - - +
156A THR* 3.9 14.6 + - + +
158A ARG* 1.3 77.7 - - + +
160A GLN* 1.3 59.0 + - - +
162A LYS* 3.7 20.1 - - - +
163A GLU* 4.8 3.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A THR* 2.8 25.9 + - + +
157A PHE* 3.9 3.6 - - - +
159A GLN* 1.3 77.2 - - - +
161A ARG* 1.3 60.6 + - - +
163A GLU* 5.0 1.8 + - - +
164A HIS* 4.8 6.1 + - - +
320A ASN 6.1 0.2 - - - +
321A THR* 4.8 9.6 - - - +
322A ALA* 3.8 15.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 161 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A PHE* 2.9 42.8 + - + +
158A ARG* 3.8 3.1 - - - +
160A GLN* 1.3 77.2 - - - +
162A LYS* 1.3 66.7 + - - +
163A GLU 3.5 1.1 - - - -
164A HIS* 2.9 47.2 + - + +
165A ILE* 3.0 29.2 + - + +
218A LEU 3.5 7.1 + - - -
219A ASP* 4.0 7.5 + - - +
221A ALA 2.3 37.5 + - - -
222A THR* 4.5 5.8 - - + +
322A ALA* 3.2 22.4 + - + -
323A GLN 3.8 6.1 + - - -
324A CYS* 3.4 29.0 + - - +
325A PRO* 3.5 15.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 162 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A ARG 2.7 15.7 + - - +
159A GLN* 3.7 16.2 - - - +
160A GLN 3.5 0.2 - - - -
161A ARG* 1.3 74.4 - - - +
163A GLU* 1.3 77.0 + - + +
165A ILE* 3.0 21.3 + - - +
166A ARG* 3.1 27.2 + - - +
185A ARG 2.7 28.9 + - - -
186A ASP* 3.7 27.6 - - - +
187A VAL* 4.1 15.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 163 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A GLN 4.8 4.1 + - - +
160A GLN 5.0 1.7 + - - +
161A ARG 3.5 0.4 - - - -
162A LYS* 1.3 101.1 + - + +
164A HIS* 1.3 61.7 + - - +
166A ARG* 3.0 39.0 + - - +
167A GLU* 3.1 24.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 164 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A GLN 4.8 3.9 + - - +
161A ARG* 2.9 48.6 + - + +
163A GLU* 1.3 75.4 - - - +
165A ILE* 1.3 60.4 + - - +
167A GLU* 3.6 5.2 + - - +
168A SER* 3.0 42.1 + - - -
219A ASP* 2.9 37.7 + - - -
322A ALA 4.8 4.9 - - - +
323A GLN* 5.4 3.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 165 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A ARG* 3.3 31.0 - - + +
162A LYS* 3.0 8.9 + - - +
164A HIS* 1.3 74.7 - - - +
166A ARG* 1.3 56.5 + - - +
168A SER* 2.9 2.8 + - - -
169A MET* 2.5 59.2 + - + +
187A VAL* 3.9 18.6 - - + -
188A PRO 4.3 3.4 - - - +
219A ASP 3.0 23.3 - - - +
220A CYS* 3.3 30.5 - - - +
221A ALA 3.6 14.4 - - - +
222A THR* 4.6 7.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 166 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162A LYS* 3.1 21.9 + - - +
163A GLU* 3.0 33.8 + - - +
165A ILE* 1.3 79.9 - - - +
167A GLU* 1.3 63.9 + - - +
169A MET* 3.8 5.2 - - - +
170A LYS* 3.0 54.9 + - - +
181A LEU* 2.7 36.1 + - + +
182A HIS* 5.2 0.4 - - - +
184A ALA* 2.9 35.0 + - - +
185A ARG 3.0 18.6 + - - -
187A VAL* 3.6 26.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 167 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A GLU 3.1 15.9 + - - +
164A HIS* 3.8 6.5 - - - +
166A ARG* 1.3 78.5 - - - +
168A SER* 1.3 63.9 + - - +
170A LYS* 3.1 21.3 + - - +
171A LYS* 3.2 13.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 168 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A HIS* 3.0 26.7 + - - -
165A ILE 2.9 3.4 + - - -
167A GLU* 1.3 73.8 - - - +
169A MET* 1.3 66.2 + - - +
170A LYS 3.3 0.2 + - - -
171A LYS* 3.3 8.0 + - - +
172A LEU* 3.1 23.0 + - - +
216A GLY 4.9 1.8 - - - +
219A ASP* 3.1 44.1 + - - +
220A CYS* 3.8 5.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 169 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A ILE* 2.5 42.8 + - + +
166A ARG* 3.8 1.1 - - - +
168A SER* 1.3 72.9 - - - +
170A LYS* 1.3 56.2 + - - +
173A LEU* 3.0 42.4 + - + +
181A LEU* 3.7 25.8 - - + -
187A VAL* 4.7 1.1 - - - -
188A PRO* 3.4 48.9 - - + +
190A VAL* 3.9 12.3 - - + -
220A CYS* 3.7 14.9 - - + -
712A MET* 3.9 32.8 - - - +
716A ILE* 4.6 4.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 170 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A ARG* 3.0 46.0 + - - +
167A GLU* 3.1 11.3 + - - +
169A MET* 1.3 76.0 - - - +
171A LYS* 1.3 60.3 + - - +
174A GLY* 2.8 35.2 + - - +
175A PRO* 6.5 0.2 - - + -
178A SER* 4.0 22.0 - - - -
181A LEU* 4.1 7.2 - - + -
182A HIS* 3.6 55.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 171 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLU 3.2 8.6 + - - +
168A SER* 3.3 10.3 + - - +
170A LYS* 1.3 78.9 - - - +
172A LEU* 1.3 60.6 + - - +
174A GLY* 4.1 4.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 172 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A SER 3.1 15.2 + - - +
169A MET 3.8 2.7 - - - +
170A LYS 3.1 0.6 - - - -
171A LYS* 1.3 78.9 - - - +
173A LEU* 1.3 75.1 + - + +
174A GLY* 3.2 1.4 + - - -
215A SER* 3.3 27.1 - - - +
216A GLY* 4.9 2.9 - - - +
217A ILE* 3.5 30.5 - - + +
220A CYS* 4.2 10.5 - - - -
705A ILE* 6.2 1.1 - - + -
709A LYS* 3.6 35.5 - - + -
712A MET* 3.7 21.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 173 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A MET* 3.0 27.8 + - + +
172A LEU* 1.3 97.5 - - + +
174A GLY* 1.3 60.9 + - - +
176A LYS* 5.4 0.3 - - - +
177A ASN* 3.5 27.2 + - + +
178A SER* 4.1 11.0 - - - -
181A LEU* 4.5 4.0 - - + -
709A LYS* 4.5 18.3 + - + +
712A MET* 4.0 18.8 - - + -
713A VAL* 4.0 23.1 - - + -
716A ILE* 3.5 32.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 174 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A LYS* 2.8 14.6 + - - -
171A LYS* 4.1 4.9 + - - -
172A LEU 3.2 5.1 - - - -
173A LEU* 1.3 78.8 - - - +
175A PRO* 1.3 71.0 - - - +
176A LYS* 3.2 3.4 - - - -
178A SER* 2.8 28.5 + - - -
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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