Contacts of the helix formed by residues 144 - 160 (chain A) in PDB entry 1TTT
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 PRO 144 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A ASP 2.8 10.8 - - - +
143A ASP* 1.3 92.4 - - - +
145A GLU* 1.3 63.5 + - + +
147A LEU* 2.8 15.5 + - + +
148A ASP* 2.7 39.3 + - - +
172A ARG* 5.4 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A ASP* 2.4 32.2 + - - +
144A PRO* 1.3 73.5 - - + +
146A LEU* 1.3 56.3 + - - +
148A ASP* 3.2 8.5 + - - +
149A LEU* 2.8 31.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ALA 3.9 17.3 - - - +
109A ALA 5.2 5.4 - - - +
111A GLY* 6.1 0.4 - - - +
141A VAL* 4.2 24.5 - - + -
143A ASP* 2.3 37.2 + - + +
144A PRO 3.2 0.2 - - - -
145A GLU* 1.3 68.2 - - - +
147A LEU* 1.3 66.2 + - - +
149A LEU* 4.2 14.6 - - + -
150A VAL* 3.2 29.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ALA* 3.7 21.5 - - + +
135A MET* 3.5 13.3 - - - +
138A VAL* 5.1 9.9 - - + -
141A VAL* 3.5 40.8 - - + +
142A ASP* 4.1 2.7 - - - -
143A ASP 2.8 36.1 + - - +
144A PRO* 2.8 10.4 + - + +
146A LEU* 1.3 78.1 - - - +
148A ASP* 1.3 64.7 + - - +
149A LEU 2.8 1.9 + - - -
150A VAL* 2.9 15.6 + - - +
151A GLU 3.0 9.9 + - - -
172A ARG* 2.9 30.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A PRO* 2.7 27.3 + - - +
145A GLU* 3.6 8.5 - - - +
147A LEU* 1.3 73.9 - - - +
149A LEU* 1.3 60.4 + - - +
151A GLU* 3.5 3.9 + - - +
152A MET* 3.4 18.2 + - - +
172A ARG* 2.7 40.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A GLU 2.8 17.3 + - - +
146A LEU* 3.6 16.6 - - + +
147A LEU 2.8 0.2 + - - -
148A ASP* 1.3 75.1 - - - +
150A VAL* 1.3 68.9 + - + +
151A GLU 3.0 1.6 - - - -
152A MET* 3.1 19.8 + - - -
153A GLU* 3.0 53.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A VAL* 4.2 8.3 - - + -
108A ALA* 4.1 12.3 - - - +
111A GLY* 3.8 22.2 - - - -
112A PRO* 3.8 14.4 - - + -
135A MET* 3.6 23.1 - - + -
146A LEU* 3.3 29.2 - - + +
147A LEU* 2.9 9.1 + - - +
149A LEU* 1.3 82.0 - - + +
151A GLU* 1.3 64.0 + - - +
153A GLU* 3.7 11.6 - - - +
154A VAL* 2.8 37.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A MET* 3.4 14.5 - - + +
147A LEU 3.0 8.1 + - - +
148A ASP* 3.7 10.5 - - - +
149A LEU 3.0 0.2 - - - -
150A VAL* 1.3 76.9 - - - +
152A MET* 1.3 52.5 + - - +
154A VAL* 2.8 7.1 + - - +
155A ARG* 2.3 83.2 + - - +
170A VAL* 3.7 22.7 - - + +
172A ARG* 2.8 36.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ASP 3.4 10.4 + - - +
149A LEU* 3.1 24.8 + - - +
151A GLU* 1.3 74.8 - - - +
153A GLU* 1.3 57.1 + - - +
155A ARG* 2.9 10.4 + - - +
156A ASP* 2.6 41.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A GLY* 4.8 1.0 - - - -
112A PRO* 3.3 34.0 - - + +
149A LEU* 3.0 40.9 + - + +
150A VAL* 3.7 8.7 + - - +
152A MET* 1.3 81.6 - - + +
154A VAL* 1.3 65.5 + - - +
156A ASP* 3.6 10.7 - - - +
157A LEU* 2.8 26.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LEU* 4.1 19.5 - - + -
106A VAL* 4.0 14.6 - - + -
112A PRO* 3.8 24.0 - - + -
116A THR* 5.3 2.5 - - + -
120A ILE* 5.6 0.4 - - + -
133A VAL* 3.9 34.3 - - + -
135A MET* 5.7 0.9 - - + -
150A VAL* 2.8 30.3 + - + +
151A GLU* 2.8 7.6 + - + +
153A GLU* 1.3 79.4 - - - +
155A ARG* 1.3 65.2 + - + +
157A LEU* 3.1 8.0 - - + +
158A LEU* 2.9 22.5 + - + +
170A VAL* 5.9 2.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A GLU* 2.3 55.5 + - + +
152A MET* 3.4 9.6 - - - +
154A VAL* 1.3 72.1 - - + +
156A ASP* 1.3 58.7 + - - +
158A LEU* 2.7 30.3 + - + +
159A ASN* 2.8 18.2 + - - +
165A GLY* 3.0 32.6 + - - +
166A ASP* 3.6 19.4 + - - +
167A GLU 4.0 0.8 - - - -
168A VAL* 2.3 29.7 + - + -
169A PRO* 5.1 0.2 - - - +
170A VAL* 3.0 29.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A MET* 2.6 24.5 + - + +
153A GLU* 3.6 9.6 - - - +
155A ARG* 1.3 73.8 - - - +
157A LEU* 1.3 70.0 + - - +
159A ASN* 3.2 16.7 + - - +
160A GLN* 2.9 35.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A PRO* 4.3 23.6 - - + -
113A MET 5.3 0.9 - - - +
116A THR* 4.5 8.3 - - + -
117A ARG* 4.0 39.7 - - + +
120A ILE* 4.3 13.0 - - + -
153A GLU 2.8 11.3 + - - +
154A VAL* 3.1 12.8 - - - +
156A ASP* 1.3 80.4 + - - +
158A LEU* 1.3 66.1 + - - +
160A GLN* 3.0 41.6 + - - +
161A TYR* 3.4 23.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LEU* 5.0 0.4 - - + -
120A ILE* 3.3 26.9 - - + -
131A ILE* 3.6 31.6 - - + -
133A VAL* 4.1 13.5 - - + -
154A VAL* 2.9 17.3 + - + +
155A ARG* 2.7 13.8 + - - +
157A LEU* 1.3 78.0 - - - +
159A ASN* 1.3 56.5 + - - +
161A TYR* 3.2 3.7 + - - +
162A GLU 3.0 5.7 + - - -
163A PHE* 2.7 45.1 + - + +
165A GLY* 3.9 11.2 - - - -
168A VAL* 3.8 38.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A ARG* 2.8 18.9 + - - +
156A ASP* 3.3 20.2 - - + +
158A LEU* 1.3 77.1 - - - +
160A GLN* 1.3 54.3 + - + +
162A GLU* 2.5 30.8 + - - +
163A PHE 3.3 5.7 - - - +
164A PRO* 4.1 0.9 - - - +
165A GLY* 3.0 24.9 + - - -
166A ASP* 3.7 21.2 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
117A ARG* 3.0 34.9 + - - +
156A ASP* 2.9 33.4 + - - +
157A LEU* 3.0 21.7 + - - +
159A ASN* 1.3 76.2 - - - +
161A TYR* 1.3 72.2 + - + +
162A GLU* 3.2 9.2 + - - +
327A GLU* 4.3 9.1 + - - +
----------------------------------------------------------
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