Contacts of the helix formed by residues 142 - 162 (chain C) in PDB entry 1Z10
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 LYS 142 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ARG* 2.9 38.5 + - - +
137C ASP* 4.2 11.1 + - - +
139C GLY* 2.8 15.3 + - - +
140C VAL 3.7 6.1 - - - +
141C GLY* 1.3 86.8 - - - +
143C ARG* 1.3 67.1 + - - +
144C GLY 3.1 5.4 - - - +
145C ILE* 3.2 5.4 + - - +
146C GLU* 3.1 19.9 + - - +
447C MET* 4.4 3.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 143 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C LYS* 1.3 75.8 - - - +
144C GLY* 1.3 64.7 + - - +
146C GLU* 3.1 27.9 + - - +
147C GLU* 3.0 56.3 + - - +
150C GLN* 3.0 30.9 + - - +
340C GLN* 5.4 1.8 - - - +
342C LYS* 5.6 1.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C PHE 5.3 0.7 - - - -
139C GLY* 4.5 9.9 - - - -
142C LYS* 3.1 4.9 - - - +
143C ARG* 1.3 81.4 - - - +
145C ILE* 1.3 61.1 + - - +
147C GLU* 3.5 13.7 + - - +
148C ARG* 3.4 19.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C PHE 4.4 7.0 - - - +
139C GLY 3.2 28.6 + - - +
140C VAL* 3.7 11.2 - - - -
141C GLY 3.8 4.7 - - - +
142C LYS 3.2 5.6 + - - +
144C GLY* 1.3 73.2 - - - +
146C GLU* 1.3 70.5 + - - +
148C ARG* 3.2 22.6 + - + +
149C ILE* 3.0 26.6 + - + +
181C VAL* 4.2 11.7 - - + -
184C SER* 4.6 1.8 - - - +
185C ILE* 3.6 33.2 - - + -
444C LEU* 3.8 26.7 - - + -
447C MET* 3.6 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C LYS 3.1 13.5 + - - +
143C ARG* 3.1 40.4 + - - +
145C ILE* 1.3 78.6 - - - +
147C GLU* 1.3 56.7 + - - +
149C ILE* 3.2 3.6 + - - +
150C GLN* 2.9 39.0 + - - +
342C LYS* 3.5 12.0 - - - +
343C PHE* 2.6 37.2 + - + +
344C GLU* 4.3 7.1 + - - +
447C MET* 3.8 17.7 - - + -
451C LEU* 4.0 16.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C ARG* 3.0 54.6 + - - +
144C GLY* 3.7 12.8 - - - +
145C ILE 3.2 0.2 - - - -
146C GLU* 1.3 76.6 - - - +
148C ARG* 1.3 58.1 + - - +
150C GLN* 3.3 9.5 + - - +
151C GLU* 2.8 29.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C GLY 3.4 9.7 + - - +
145C ILE* 3.2 22.6 + - + +
147C GLU* 1.3 78.3 - - - +
149C ILE* 1.3 59.0 + - + +
151C GLU* 2.7 33.8 + - - +
152C GLU* 2.8 61.1 + - - +
180C ASN 4.6 4.6 + - - -
181C VAL* 5.1 5.5 - - + +
184C SER* 3.0 39.0 - - - +
189C ASP* 5.4 3.8 + - - -
190C ARG* 3.8 16.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C ILE* 3.0 15.4 + - + +
146C GLU 3.6 5.8 - - - +
148C ARG* 1.3 72.7 - - - +
150C GLN* 1.3 59.0 + - - +
152C GLU* 3.2 1.3 + - - +
153C ALA* 2.8 32.1 + - - +
181C VAL* 4.0 27.1 - - + -
444C LEU* 4.2 11.2 - - + -
447C MET* 3.7 38.1 - - + -
448C GLU* 3.8 23.8 - - + +
451C LEU* 3.7 28.7 - - + -
452C PHE* 3.8 18.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 150 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C ARG* 3.0 27.6 + - - +
146C GLU* 2.9 27.6 + - + +
147C GLU* 3.7 8.9 - - - +
149C ILE* 1.3 76.3 - - - +
151C GLU* 1.3 63.3 + - - +
153C ALA* 3.3 7.9 + - - +
154C GLY* 2.9 19.6 + - - -
340C GLN* 3.8 41.4 + - + +
341C PRO 2.9 28.7 + - - +
342C LYS* 3.6 20.2 - - - +
451C LEU* 4.4 9.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C GLU 2.8 17.8 + - - +
148C ARG* 2.7 39.8 + - - +
150C GLN* 1.3 77.7 - - - +
152C GLU* 1.3 63.0 + - - +
154C GLY* 2.9 12.2 + - - -
155C PHE* 3.1 42.0 + - + -
190C ARG* 4.7 2.0 - - - -
340C GLN* 5.8 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 152 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C ARG* 2.8 38.7 + - - +
149C ILE 3.8 3.4 - - - +
151C GLU* 1.3 75.4 - - - +
153C ALA* 1.3 63.5 + - - +
155C PHE* 3.0 17.8 + - - +
156C LEU* 3.0 11.3 + - - +
177C THR* 3.2 32.2 - - + +
180C ASN* 3.0 26.2 + - + +
181C VAL* 4.4 12.1 - - + -
190C ARG* 2.8 38.4 + - - -
193C TYR* 2.8 22.0 + - - -
452C PHE* 4.5 0.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 153 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C ILE* 2.8 21.9 + - + +
150C GLN* 3.4 9.6 - - - +
152C GLU* 1.3 71.3 - - - +
154C GLY* 1.3 62.1 + - - +
156C LEU* 3.0 9.4 + - + +
157C ILE* 2.9 28.3 + - - +
451C LEU* 4.8 2.9 - - + +
452C PHE* 3.8 24.1 - - + -
455C THR* 4.2 26.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C GLN 2.9 14.9 + - - -
151C GLU* 2.9 6.7 + - - -
153C ALA* 1.3 76.4 - - - +
155C PHE* 1.3 56.8 + - - +
157C ILE* 3.3 10.6 + - - +
158C ASP* 3.0 34.7 + - - +
455C THR* 5.3 1.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C GLU* 3.1 48.9 + - + -
152C GLU* 3.0 13.9 + - - +
154C GLY* 1.3 75.1 - - - +
156C LEU* 1.3 58.0 + - - +
158C ASP* 3.3 18.2 + - - +
159C ALA* 2.9 28.4 + - - +
190C ARG* 3.4 41.3 - - - +
193C TYR* 3.5 22.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 156 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C GLU 3.0 9.2 + - - +
153C ALA* 3.3 9.9 - - + +
155C PHE* 1.3 72.3 - - - +
157C ILE* 1.3 61.7 + - + +
159C ALA* 3.1 5.9 + - + +
160C LEU* 2.8 54.8 + - + +
173C PHE* 3.7 23.6 - - + +
174C LEU* 4.2 17.7 - - + -
176C ARG* 5.8 0.2 - - - +
177C THR* 3.5 36.8 - - + +
193C TYR* 3.6 2.6 + - + -
310C LEU* 6.1 1.8 - - + -
452C PHE* 4.8 12.6 - - + -
456C VAL* 3.9 23.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C ALA* 2.9 20.8 + - + +
154C GLY* 3.5 9.6 - - - +
156C LEU* 1.3 77.0 - - + +
158C ASP* 1.3 65.2 + - - +
160C LEU* 3.2 2.2 + - + +
161C ARG* 2.8 54.4 + - - +
455C THR* 3.6 39.7 - - + +
456C VAL* 4.0 17.0 - - + +
459C ASN* 3.9 11.9 - - - +
460C PHE* 3.8 26.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 158 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C GLY 3.0 17.5 + - - +
155C PHE* 3.7 24.9 - - - +
156C LEU 3.3 0.2 - - - -
157C ILE* 1.3 76.6 - - - +
159C ALA* 1.3 58.1 + - - +
161C ARG* 3.4 17.2 + - - +
162C GLY* 2.9 25.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 159 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C PHE 2.9 16.6 + - - +
156C LEU* 3.1 7.4 + - + +
158C ASP* 1.3 78.1 - - - +
160C LEU* 1.3 60.9 + - - +
162C GLY* 3.3 10.9 + - - -
163C THR* 3.5 14.2 + - - +
173C PHE* 4.0 13.6 - - + -
176C ARG* 4.0 23.6 - - - +
193C TYR* 4.2 10.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 160 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C LEU* 2.8 43.0 + - + +
157C ILE* 4.9 0.4 - - - -
159C ALA* 1.3 69.8 - - - +
161C ARG* 1.3 65.2 + - - +
163C THR* 2.6 29.1 + - + -
164C GLY 4.0 0.9 + - - -
165C GLY 4.8 1.0 + - - -
168C ILE* 4.9 2.2 - - + -
173C PHE* 4.0 32.1 - - + -
174C LEU* 5.6 1.3 - - + -
456C VAL* 4.2 10.3 - - + -
460C PHE* 3.7 28.1 - - + -
491C PHE* 3.8 56.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 161 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C ILE* 2.8 33.1 + - - +
158C ASP* 3.6 15.8 + - - +
160C LEU* 1.3 77.1 - - - +
162C GLY* 1.3 58.9 + - - +
163C THR 2.9 6.2 + - - -
164C GLY* 3.0 15.2 + - - -
165C GLY 4.9 0.2 + - - -
459C ASN* 3.0 33.9 + - - +
460C PHE* 3.7 19.9 - - + -
493C PRO* 4.9 16.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 162 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158C ASP 2.9 14.9 + - - -
159C ALA* 3.3 8.0 + - - -
160C LEU 3.1 0.8 - - - -
161C ARG* 1.3 76.5 - - - +
163C THR* 1.3 59.3 + - - +
164C GLY* 3.2 0.6 - - - -
----------------------------------------------------------
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