Contacts of the helix formed by residues 141 - 164 (chain C) in PDB entry 1F33
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 ASP 141 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ARG* 4.2 12.3 - - - +
21C VAL* 4.7 9.4 - - + +
25C GLU* 3.4 9.3 + - - +
29C THR* 3.9 17.4 + - - +
83C ARG* 2.8 34.8 + - - -
87C LEU* 4.3 5.9 - - + +
139C ALA* 3.5 1.2 - - - +
140C LYS* 1.3 76.7 - - - +
142C ASP* 1.3 68.7 + - - +
143C ASP 3.9 2.1 + - - -
144C THR* 2.4 35.3 + - - +
145C ALA* 2.9 21.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 142 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ARG* 4.3 8.2 - - + +
136B ILE* 3.7 43.5 - - + +
137B GLY* 4.3 9.0 + - - -
149B THR* 4.3 5.0 - - + +
140C LYS 3.3 8.4 + - - +
141C ASP* 1.3 72.9 + - - +
143C ASP* 1.3 66.2 + - - +
145C ALA* 3.0 10.8 + - - +
146C ASP* 2.9 21.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 143 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ARG* 4.0 3.5 - - - -
136B ILE* 3.5 10.8 - - - +
149B THR* 3.5 16.1 - - - +
152B SER* 2.6 37.9 + - - -
153B ARG* 3.7 20.0 + - - +
156B ASP* 3.3 7.6 - - - +
83C ARG* 3.3 36.2 + - - +
141C ASP* 3.3 2.5 + - - -
142C ASP* 1.3 77.4 - - - +
144C THR* 1.3 62.1 + - - +
146C ASP* 3.1 4.3 + - - +
147C ILE* 3.0 28.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C THR* 3.1 23.6 - - + +
32C LEU* 5.1 4.5 - - + -
33C LEU* 3.5 31.0 - - + -
83C ARG* 3.6 8.0 + - - +
139C ALA* 4.4 7.6 - - + -
141C ASP* 2.4 36.1 + - - -
143C ASP* 1.3 72.7 - - - +
145C ALA* 1.3 67.3 + - - +
147C ILE* 3.2 10.3 + - - +
148C LEU* 2.9 35.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ILE* 4.0 23.7 - - + +
139C ALA* 3.9 17.0 - - + +
141C ASP 2.9 12.4 + - - +
142C ASP* 3.0 12.1 + - - +
144C THR* 1.3 76.4 - - - +
146C ASP* 1.3 54.6 + - - +
148C LEU* 3.3 5.5 + - - +
149C THR* 2.6 38.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B THR* 3.7 26.8 - - + +
150B ALA 5.2 0.5 + - - -
153B ARG* 2.9 24.1 + - - +
142C ASP 2.9 6.2 + - - +
143C ASP 3.3 9.4 - - - +
144C THR 3.1 0.2 - - - -
145C ALA* 1.3 77.5 - - - +
147C ILE* 1.3 64.9 + - - +
149C THR* 2.9 18.8 + - - -
150C ALA* 2.9 13.7 + - - +
603C TRS 2.6 53.1 + - - -
146E ASP* 4.3 1.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B ARG* 3.4 35.4 - - + +
33C LEU* 5.2 1.8 - - + -
76C HIS* 4.8 3.2 + - - +
79C THR* 3.8 24.5 - - + -
80C MET* 3.6 30.5 - - + -
83C ARG* 3.7 41.1 - - + -
143C ASP 3.0 17.2 + - - +
144C THR* 3.5 9.0 - - + +
146C ASP* 1.3 75.8 - - - +
148C LEU* 1.3 64.0 + - + +
150C ALA* 3.3 5.5 + - - +
151C ALA* 3.1 20.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C LEU* 4.3 7.4 - - + -
33C LEU* 4.6 6.7 - - + -
36C GLN* 4.0 10.5 - - + -
80C MET* 3.8 28.5 - - + -
132C VAL* 3.9 19.4 - - + +
135C ALA* 3.8 32.8 - - + +
136C ILE* 3.9 13.7 - - + +
139C ALA* 4.1 7.4 - - + -
144C THR* 2.9 35.8 + - + +
145C ALA 3.7 3.8 - - - +
147C ILE* 1.3 72.8 - - + +
149C THR* 1.3 56.3 + - - +
151C ALA* 3.7 3.1 - - - +
152C SER* 2.7 36.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ILE* 3.4 24.7 - - + +
145C ALA 2.6 21.5 + - - -
146C ASP* 2.9 11.7 + - - -
148C LEU* 1.3 74.5 - - - +
150C ALA* 1.3 61.0 + - - +
153C ARG* 2.8 33.1 + - - +
142E ASP* 4.2 5.0 - - + +
143E ASP* 3.3 23.2 - - - +
146E ASP* 3.7 36.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 150 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B ARG* 4.8 10.8 - - - +
76C HIS* 3.4 21.0 - - + +
146C ASP 2.9 11.0 + - - +
147C ILE* 3.5 10.8 - - - +
149C THR* 1.3 79.1 - - - +
151C ALA* 1.3 61.5 + - - +
153C ARG* 3.4 8.9 - - - +
154C ASP* 3.4 15.2 + - - +
603C TRS 4.4 19.0 + - - +
146E ASP* 5.3 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C PHE* 3.9 22.9 - - + -
76C HIS* 3.4 31.4 - - + +
80C MET* 5.0 5.8 - - - -
132C VAL* 4.6 2.7 - - + -
147C ILE* 3.1 15.2 + - + +
148C LEU* 3.7 7.0 - - - +
150C ALA* 1.3 75.4 - - - +
152C SER* 1.3 66.6 + - - +
154C ASP* 3.1 4.2 + - - +
155C LEU* 2.9 29.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 152 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C VAL* 4.0 20.1 - - - +
133C ARG* 3.6 21.4 + - - +
136C ILE* 3.7 9.2 - - - -
148C LEU 2.7 22.5 + - - -
149C THR 3.6 0.2 - - - -
151C ALA* 1.3 71.1 - - - +
153C ARG* 1.3 65.4 + - - +
154C ASP 3.1 0.2 + - - -
155C LEU* 3.1 1.7 + - - -
156C ASP* 2.9 29.2 + - - +
143E ASP* 2.6 32.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 153 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C THR 2.8 16.6 + - - +
150C ALA* 3.4 8.9 - - - +
152C SER* 1.3 78.3 - - - +
154C ASP* 1.3 62.3 + - - +
156C ASP* 3.8 4.1 + - - +
157C LYS* 3.4 19.2 + - - +
603C TRS 4.1 14.3 + - - -
79E THR* 3.6 18.8 - - - +
83E ARG* 5.2 2.9 - - - +
86E GLN* 4.3 4.0 + - - +
143E ASP* 3.7 26.9 + - + +
146E ASP* 3.0 27.6 + - - -
147E ILE* 3.5 44.1 - - + +
150E ALA* 4.9 7.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ALA* 4.2 8.4 - - - +
76C HIS* 2.6 37.0 + - + +
150C ALA 3.4 3.9 + - - -
151C ALA 3.1 4.7 + - - +
153C ARG* 1.3 79.8 - - - +
155C LEU* 1.3 61.8 + - + +
157C LYS* 2.9 12.7 + - - +
158C PHE* 2.8 58.6 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C PHE* 3.2 37.5 - - + -
43C LEU* 3.8 20.4 - - + -
73C LEU* 4.2 14.8 - - + -
76C HIS* 5.4 1.1 - - + -
125C TYR* 4.2 10.2 - - + +
128C VAL* 3.5 30.3 - - + -
129C ALA* 3.9 22.0 - - + +
132C VAL* 4.7 2.5 - - + -
151C ALA* 2.9 26.1 + - - +
152C SER* 3.8 5.4 - - - +
154C ASP* 1.3 78.9 - - + +
156C ASP* 1.3 57.4 + - - +
158C PHE* 3.2 7.0 + - + +
159C LEU* 2.8 31.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 156 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ALA* 3.7 11.6 - - - +
133C ARG* 2.6 33.6 + - - -
152C SER* 2.9 18.7 + - - +
153C ARG 4.1 1.6 - - - +
155C LEU* 1.3 76.2 - - - +
157C LYS* 1.3 61.2 + - - +
159C LEU* 3.8 6.4 - - - +
160C TRP* 3.1 23.0 + - - +
19E ASN* 3.3 18.0 + - - +
83E ARG* 2.7 40.0 + - - +
86E GLN* 3.7 10.5 - - + +
143E ASP* 3.5 4.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C ARG 3.4 12.0 + - - +
154C ASP* 2.9 17.3 + - - +
156C ASP* 1.3 77.1 - - - +
158C PHE* 1.3 74.7 + - + +
160C TRP* 3.3 11.5 + - + +
161C PHE* 2.9 55.9 + - + +
82E GLU* 4.0 20.2 + - - +
86E GLN* 3.8 23.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 158 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C GLY 5.3 0.4 - - - -
69C PHE* 3.3 53.1 - + + -
72C ALA* 3.6 32.5 - - + -
73C LEU* 4.1 12.8 - - + -
76C HIS* 5.7 0.4 - + - -
125C TYR* 3.7 24.5 - + + -
154C ASP* 2.8 45.9 + - + +
155C LEU* 3.7 7.4 - - - +
157C LYS* 1.3 89.5 - - + +
159C LEU* 1.3 66.0 + - - +
161C PHE* 2.9 3.7 + + - +
162C ILE* 2.7 29.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 159 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ALA* 3.5 31.0 - - - +
125C TYR* 4.2 10.4 - - + -
126C ALA* 3.9 22.2 - - + +
129C ALA* 4.4 10.1 - - + -
155C LEU 2.8 20.5 + - - +
156C ASP* 3.8 5.8 - - - +
158C PHE* 1.3 73.2 - - - +
160C TRP* 1.3 59.2 + - - +
162C ILE* 3.1 4.5 + - - +
163C GLU* 2.8 58.1 + - + +
17E THR* 4.4 1.3 - - - +
18E ARG* 4.1 1.3 - - + -
19E ASN* 3.7 40.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 160 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C ASP 3.1 11.4 + - - +
157C LYS* 3.3 11.2 - - + +
159C LEU* 1.3 80.4 - - - +
161C PHE* 1.3 85.8 + + - +
163C GLU* 3.5 8.9 + - - +
164C SER* 2.7 65.7 + - - -
17E THR* 5.7 1.3 - - - -
82E GLU* 3.9 30.7 - - + -
85E VAL* 3.3 38.0 - - + +
86E GLN* 3.6 40.6 - - + +
52F TRP* 3.9 13.2 + - - -
54F MET 5.2 1.4 + - - -
55F ARG* 4.1 15.0 - - - +
59F PHE* 4.2 14.9 - + - -
63F HIS* 4.0 13.7 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 161 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C MET* 4.0 5.8 - - + -
69C PHE* 3.7 30.1 - + + -
157C LYS* 2.9 37.6 + - + +
158C PHE 2.9 7.4 + - - +
160C TRP* 1.3 112.2 - + - +
162C ILE* 1.3 65.0 + - - +
164C SER* 3.5 2.4 + - - -
165C ASN* 2.8 30.6 + - - -
82E GLU* 5.7 0.9 - - - -
59F PHE* 3.7 13.6 - + - -
60F ILE* 3.5 30.7 - - + -
63F HIS* 3.9 20.6 - + - -
64F GLU* 4.9 4.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 162 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C MET* 4.4 10.3 - - + -
66C LEU* 4.8 5.8 - - + -
69C PHE* 3.7 15.7 - - + -
118C LEU* 3.3 40.2 - - + +
121C LEU* 4.1 10.3 - - + -
122C ALA* 3.8 12.6 - - + +
125C TYR* 3.5 54.1 - - + -
158C PHE 2.7 18.5 + - - +
159C LEU* 3.5 6.3 - - - +
161C PHE* 1.3 72.0 - - - +
163C GLU* 1.3 65.5 + - - +
165C ASN* 2.9 18.8 + - - +
166C ILE* 3.6 7.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 163 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ALA* 4.3 4.7 - - + -
159C LEU* 2.8 35.1 + - + +
160C TRP* 3.9 7.6 - - - +
162C ILE* 1.3 73.2 - - - +
164C SER* 1.3 57.3 + - - +
166C ILE* 2.9 36.6 + - + +
16E TYR* 4.2 4.2 - - - +
17E THR* 2.8 30.6 + - - -
18E ARG* 2.8 60.7 + - - +
55F ARG* 4.7 12.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 164 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C TRP* 2.7 47.6 + - - -
161C PHE 3.9 0.7 - - - -
162C ILE 3.1 0.4 + - - -
163C GLU* 1.3 75.5 - - - +
165C ASN* 1.3 56.5 + - - +
166C ILE 3.4 0.2 - - - -
55F ARG* 3.7 23.4 + - - +
56F GLY 2.8 26.4 + - - +
59F PHE* 3.0 41.2 - - - +
----------------------------------------------------------
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