Contacts of the helix formed by residues 120 - 148 (chain I) in PDB entry 2FJC
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 ILE 120 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F ILE* 4.3 13.5 - - + -
60I ILE* 4.1 21.5 - - + -
61I TYR 3.3 23.7 + - - +
62I GLY* 4.0 1.8 - - - -
64I GLU* 3.3 29.6 - - + +
65I PHE* 3.4 30.7 - - - +
68I VAL* 3.6 23.3 - - + -
119I THR* 1.3 71.3 - - - +
121I VAL* 1.3 69.4 + - + +
123I ALA* 3.2 1.9 + - - +
124I LEU* 2.9 36.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 121 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F ILE* 4.3 24.9 - - + -
119I THR* 3.8 12.5 - - + +
120I ILE* 1.3 77.7 - - + +
122I SER* 1.3 62.7 + - - +
124I LEU* 4.6 0.4 - - - -
125I ALA* 2.9 31.5 + - - +
175I LEU* 3.7 22.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 122 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118I ILE* 3.8 9.8 - - - +
119I THR* 2.8 22.5 + - - -
121I VAL* 1.3 86.0 - - - +
123I ALA* 1.3 60.7 + - - +
125I ALA* 3.5 5.2 + - - +
126I ARG* 3.1 53.9 + - - +
129I ARG* 4.9 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 123 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56I TYR* 3.7 25.9 - - + -
60I ILE* 3.6 25.8 - - + -
72I LEU* 5.6 1.3 - - + -
118I ILE* 3.7 10.2 - - + +
119I THR 2.9 16.5 + - - +
120I ILE 3.7 2.7 - - - +
122I SER* 1.3 77.9 - - - +
124I LEU* 1.3 64.9 + - + +
126I ARG* 3.2 4.7 + - - +
127I VAL* 3.0 28.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 124 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F ILE* 4.6 7.0 - - + -
68I VAL* 3.9 28.3 - - + -
71I LEU* 4.4 12.1 - - + -
72I LEU* 4.4 14.1 - - + -
120I ILE* 2.9 37.2 + - + +
123I ALA* 1.3 73.2 - - + +
125I ALA* 1.3 61.5 + - - +
127I VAL* 3.3 8.1 + - + +
128I LYS* 2.9 30.3 + - - +
171I LEU* 3.9 24.1 - - + +
174I THR* 3.8 22.0 - - + +
175I LEU* 3.8 18.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 125 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121I VAL 2.9 20.0 + - - +
122I SER* 3.7 7.0 - - - +
124I LEU* 1.3 74.9 - - - +
126I ARG* 1.3 59.2 + - - +
128I LYS* 3.4 3.8 + - - +
129I ARG* 3.0 41.8 + - - +
175I LEU* 3.5 18.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 126 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52I LYS* 5.4 3.6 - - - +
56I TYR* 3.3 24.9 - - - +
113I GLU* 2.7 39.6 + - - -
115I GLU* 3.4 25.3 + - - -
118I ILE* 3.3 20.4 - - - +
122I SER* 3.1 31.1 + - - +
123I ALA 3.2 5.8 + - - +
125I ALA* 1.3 74.7 - - - +
127I VAL* 1.3 64.7 + - - +
129I ARG* 3.2 31.9 + - - +
130I ASP* 3.0 27.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 127 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49I LEU* 5.6 1.6 - - + -
53I LEU* 3.9 21.8 - - + -
56I TYR* 3.5 26.5 - - + -
72I LEU* 4.4 8.5 - - + -
75I TYR* 4.3 12.6 - - + -
123I ALA 3.0 16.4 + - - +
124I LEU* 3.3 15.3 - - + +
126I ARG* 1.3 72.4 - - - +
128I LYS* 1.3 65.1 + - - +
130I ASP* 3.2 8.3 + - - +
131I PHE* 2.7 40.0 + - + -
171I LEU* 3.3 23.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 128 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124I LEU 2.9 17.0 + - - +
125I ALA* 3.5 6.3 - - - +
127I VAL* 1.3 76.6 - - - +
129I ARG* 1.3 57.1 + - - +
131I PHE* 3.2 4.1 + - - +
132I GLU* 2.9 67.6 + - + +
168I ILE* 3.7 15.2 - - + +
171I LEU* 3.7 21.8 - - + -
172I GLY* 3.5 38.4 - - - +
175I LEU* 4.1 12.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 129 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122I SER 4.9 0.2 + - - -
125I ALA* 3.0 20.9 + - - +
126I ARG* 3.4 46.5 - - - +
128I LYS* 1.3 76.1 - - - +
130I ASP* 1.3 60.2 + - - +
132I GLU* 3.2 17.3 + - - +
133I TYR* 2.9 27.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 130 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49I LEU* 4.2 20.5 - - + +
52I LYS* 2.6 43.7 + - - +
56I TYR* 5.4 0.5 - - - -
110I ILE* 3.8 20.3 - - + +
111I ALA 5.4 0.3 + - - -
126I ARG 3.0 16.7 + - - +
127I VAL* 3.7 9.3 - - - +
129I ARG* 1.3 74.6 - - - +
131I PHE* 1.3 61.7 + - - +
133I TYR* 3.3 9.4 + - - +
134I LEU* 2.9 32.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 131 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49I LEU* 3.6 31.2 - - + -
53I LEU* 4.9 2.7 - - + -
75I TYR* 3.9 45.8 - + + -
79I VAL* 4.5 9.0 - - + -
127I VAL* 2.7 25.0 + - + +
128I LYS 3.6 4.5 - - - +
130I ASP* 1.3 74.0 - - - +
132I GLU* 1.3 58.2 + - - +
134I LEU* 3.3 4.5 + - + +
135I SER* 2.8 28.9 + - - -
164I LEU* 3.8 25.2 - - + +
167I ALA* 3.8 27.6 - - + -
168I ILE* 3.6 17.0 - - + +
171I LEU* 3.8 18.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 132 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128I LYS* 2.9 54.1 + - - +
129I ARG* 3.6 19.0 - - - +
131I PHE* 1.3 74.7 - - - +
133I TYR* 1.3 64.8 + - - +
135I SER* 3.1 3.8 + - - -
136I THR* 3.0 30.7 + - + +
168I ILE* 3.8 28.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 133 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41I GLN* 3.5 15.6 + - - -
45I ASP* 3.2 29.2 + - - -
109I GLY* 3.4 30.8 - - - -
110I ILE* 3.7 28.0 - - + -
129I ARG 2.9 14.2 + - - +
130I ASP* 3.6 9.9 - - - +
132I GLU* 1.3 76.5 - - - +
134I LEU* 1.3 68.9 + - + +
136I THR* 3.0 23.8 + - - -
137I ARG* 3.1 30.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 134 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42I HIS* 5.2 3.4 - - - +
45I ASP* 3.7 34.3 - - + +
46I LEU* 3.5 26.9 - - + -
49I LEU* 3.6 25.8 - - + -
79I VAL* 5.6 0.7 - - + -
110I ILE* 4.2 7.9 - - + -
130I ASP 2.9 17.6 + - - +
131I PHE* 3.6 10.3 - - + +
133I TYR* 1.3 79.1 - - + +
135I SER* 1.3 54.4 + - - +
137I ARG* 3.2 5.1 + - + +
138I PHE* 2.7 64.9 + - + -
164I LEU* 4.1 7.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 135 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131I PHE 2.8 18.1 + - - -
132I GLU* 3.1 7.6 + - - -
134I LEU* 1.3 76.8 - - - +
136I THR* 1.3 59.2 + - - +
138I PHE 3.4 0.2 + - - -
139I SER* 2.9 35.6 + - - -
161I LEU* 3.6 15.5 + - - +
164I LEU* 3.9 14.9 - - - +
165I GLY* 5.6 1.7 + - - -
168I ILE* 4.0 17.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 136 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132I GLU* 3.0 15.1 + - + +
133I TYR* 3.0 16.0 + - - -
135I SER* 1.3 75.3 - - - +
137I ARG* 1.3 68.6 + - - +
139I SER* 3.3 8.0 + - - -
140I GLN* 3.2 29.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 137 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38I GLN* 2.9 40.1 - - - +
41I GLN* 2.9 33.4 + - - +
42I HIS* 3.7 11.9 - - + +
45I ASP* 4.8 1.3 - - - +
133I TYR* 3.1 42.3 + - + +
134I LEU* 3.6 8.1 - - + +
136I THR* 1.3 84.1 + - - +
138I PHE* 1.3 61.1 + - - +
140I GLN* 2.8 44.4 + - - +
141I THR* 3.4 8.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 138 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42I HIS* 3.3 40.8 - + + -
46I LEU* 3.9 20.9 - - + -
86I ILE* 3.3 25.6 - - + -
134I LEU* 2.7 46.9 + - + +
137I ARG* 1.3 70.2 - - - +
139I SER* 1.3 59.9 + - - +
141I THR* 3.1 2.8 + - - -
142I GLN 2.9 23.7 + - - -
157I ILE* 3.3 25.6 - - + +
160I ILE* 3.8 24.5 - - + -
161I LEU* 3.4 17.7 - - + -
164I LEU* 3.5 22.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 139 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135I SER* 2.9 24.0 + - - -
136I THR* 3.5 9.3 - - - -
137I ARG 3.2 0.2 - - - -
138I PHE* 1.3 77.0 - - - +
140I GLN* 1.3 62.9 + - - +
142I GLN* 3.2 5.8 + - - +
143I VAL* 3.0 30.4 + - - +
161I LEU* 4.0 20.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 140 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38I GLN* 3.6 6.5 - - - +
136I THR* 3.2 18.0 + - - +
137I ARG* 2.8 53.0 + - - +
138I PHE 3.2 0.4 - - - -
139I SER* 1.3 76.8 - - - +
141I THR* 1.3 62.2 + - - +
143I VAL* 3.3 9.1 + - - +
144I LEU* 3.0 30.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 141 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35I ILE* 4.6 8.3 - - + -
38I GLN* 3.1 22.8 + - + +
39I LEU* 3.8 28.5 - - + -
42I HIS* 2.6 27.5 + - - +
137I ARG 3.4 0.6 + - - -
138I PHE 3.1 8.2 + - - -
140I GLN* 1.3 77.4 - - - +
142I GLN* 1.3 59.7 + - - +
144I LEU* 3.1 9.2 + - - +
145I ALA* 2.8 27.9 + - - +
153I THR* 4.4 7.2 - - + -
157I ILE* 4.0 14.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 142 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149G GLY* 4.3 15.0 + - - +
151G ALA* 3.6 30.2 - - + +
138I PHE 2.9 8.3 + - - +
139I SER* 3.2 10.3 + - - +
141I THR* 1.3 76.2 - - - +
143I VAL* 1.3 75.4 + - + +
145I ALA* 3.8 6.5 - - - +
146I ALA* 2.8 34.1 + - - +
154I ASP* 2.8 34.8 - - - +
157I ILE* 3.6 26.0 - - + +
158I THR* 4.4 2.2 - - - +
161I LEU* 4.2 9.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 143 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149G GLY* 5.7 5.6 - - - +
139I SER* 3.0 21.6 + - - +
140I GLN* 3.5 10.3 - - - +
141I THR 3.2 0.2 - - - -
142I GLN* 1.3 92.0 - - + +
144I LEU* 1.3 66.3 + - + +
146I ALA* 3.3 2.4 + - - +
147I GLU* 2.9 55.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 144 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I ALA* 4.2 28.7 - - + +
35I ILE* 4.0 14.1 - - + +
38I GLN* 4.0 27.1 - - + -
140I GLN* 3.0 20.9 + - + +
141I THR* 3.1 6.9 + - - +
143I VAL* 1.3 80.2 - - + +
145I ALA* 1.3 62.3 + - - +
147I GLU* 3.4 12.4 + - - +
148I SER* 3.0 27.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 145 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35I ILE* 3.8 7.8 - - + +
141I THR 2.8 18.8 + - - +
142I GLN* 3.8 4.5 - - - +
144I LEU* 1.3 72.6 - - - +
146I ALA* 1.3 62.2 + - - +
148I SER* 3.4 6.5 + - - -
149I GLY 3.1 4.2 + - - -
150I ASP* 2.8 50.2 + - + +
153I THR* 4.1 12.8 - - + -
154I ASP* 3.7 17.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 146 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142I GLN* 2.8 31.2 + - - +
143I VAL* 3.6 4.9 - - - +
145I ALA* 1.3 75.5 - - - +
147I GLU* 1.3 62.7 + - + +
149I GLY* 3.3 11.8 + - - -
154I ASP* 3.6 20.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 147 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143I VAL* 2.9 41.5 + - + +
144I LEU* 4.0 10.9 - - - +
146I ALA* 1.3 79.0 - - + +
148I SER* 1.3 58.5 + - - +
149I GLY 3.4 0.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 148 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27I PRO* 5.5 7.4 - - - +
28I ASP* 6.3 0.2 - - - -
31I ALA* 3.5 29.1 - - - +
35I ILE* 3.5 17.2 - - - +
144I LEU 3.0 17.5 + - - -
145I ALA 3.4 5.5 + - - -
147I GLU* 1.3 76.6 - - - +
149I GLY* 1.3 59.5 + - - +
150I ASP* 3.4 4.9 + - - +
----------------------------------------------------------
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