Contacts of the helix formed by residues 61 - 83 (chain C) in PDB entry 1FIU
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 61 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59C ARG 4.3 2.0 - - - +
60C LEU* 1.3 95.0 - - + +
62C GLY* 1.3 66.1 + - - +
63C GLN* 3.4 15.3 - - - +
64C THR* 2.9 31.9 + - + +
65C SER* 3.1 9.2 + - - -
9L C 6.3 0.2 - - - -
10L G 3.9 19.7 - - - +
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Residues in contact with GLY 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60C LEU 3.4 2.0 + - - -
61C PRO* 1.3 72.3 - - - +
63C GLN* 1.3 60.8 + - - +
65C SER* 3.6 4.7 - - - -
66C GLY* 2.9 25.8 + - - -
5K C 4.2 2.4 - - - +
6K C 3.2 40.5 - - - +
7K G 4.1 13.1 - - - -
8L G 5.5 2.2 - - - +
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Residues in contact with GLN 63 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C PRO* 3.4 19.9 - - - +
62C GLY* 1.3 76.5 + - - +
64C THR* 1.3 60.3 + - - +
66C GLY* 4.1 0.2 - - - -
67C ASN* 3.2 25.3 + - - +
4G G 3.9 12.1 - - - +
5K C 3.8 22.3 + - - +
8L G 3.5 15.9 + - - +
9L C 2.8 47.5 + - - +
10L G 3.1 36.3 + - - +
11L C 3.8 9.1 - - - +
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Residues in contact with THR 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ILE* 5.4 0.2 - - + -
60C LEU* 4.0 23.3 - - + -
61C PRO* 2.9 30.5 + - + +
63C GLN* 1.3 75.8 - - - +
65C SER* 1.3 60.4 + - - +
67C ASN* 3.4 2.8 + - - +
68C ALA* 2.9 34.9 + - + +
10L G 3.2 6.9 + - - -
11L C 2.6 29.1 + - - +
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Residues in contact with SER 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ILE* 4.2 22.7 - - - +
60C LEU* 4.6 12.3 + - - +
61C PRO 3.1 6.4 + - - -
62C GLY* 3.2 18.2 + - - -
64C THR* 1.3 78.0 - - - +
66C GLY* 1.3 60.0 + - - +
68C ALA* 4.0 2.0 - - - +
69C PHE* 2.8 35.0 + - - +
188C TRP* 3.6 31.0 - - - -
6K C 3.8 2.8 + - - -
7K G 4.9 0.7 + - - -
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Residues in contact with GLY 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C GLY 2.9 16.4 + - - -
63C GLN 4.1 0.4 - - - -
65C SER* 1.3 79.3 + - - +
67C ASN* 1.3 60.4 + - - +
69C PHE* 3.9 1.7 - - - +
70C GLU* 3.2 30.2 + - - +
186C CYS* 5.5 0.3 - - - +
188C TRP* 4.7 0.7 - - - -
5K C 3.4 27.4 - - - -
6K C 3.5 12.3 + - - -
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Residues in contact with ASN 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63C GLN 3.2 18.8 + - - +
64C THR 3.8 2.6 + - - +
66C GLY* 1.3 76.9 - - - +
68C ALA* 1.3 60.6 + - - +
70C GLU* 3.3 7.3 + - - +
71C ALA* 3.0 26.0 + - - +
96C GLN* 2.9 33.0 + - - +
5K C 5.5 1.0 - - - -
11L C 3.8 35.4 + - - +
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Residues in contact with ALA 68 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ILE* 3.4 32.8 - - + -
64C THR* 2.9 20.8 + - + +
65C SER 4.0 1.6 - - - +
67C ASN* 1.3 76.8 - - - +
69C PHE* 1.3 65.6 + - - +
71C ALA* 3.2 6.9 + - - +
72C ILE* 2.9 34.0 + - + +
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Residues in contact with PHE 69 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12C PHE* 4.1 15.5 - + - -
16C LEU* 4.1 14.4 - - + -
21C ILE* 4.9 1.9 - - + +
65C SER 2.8 22.6 + - - +
66C GLY 3.9 3.1 - - - +
68C ALA* 1.3 73.7 - - - +
70C GLU* 1.3 63.2 + - - +
72C ILE* 3.4 2.6 + - - +
73C CYS* 2.9 51.4 + - - -
186C CYS* 4.0 12.3 - - + -
187C LYS 3.7 12.1 - - - -
188C TRP* 3.5 49.4 - + + -
219C VAL* 3.7 27.1 - - + -
220C THR 3.9 5.2 - - - -
221C ALA* 3.8 19.7 - - + -
244C PHE* 4.4 4.3 - - + -
6K C 5.1 0.4 - - - -
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Residues in contact with GLU 70 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66C GLY 3.2 20.7 + - - +
67C ASN* 3.4 6.5 - - - +
68C ALA 3.2 0.2 - - - -
69C PHE* 1.3 78.0 - - - +
71C ALA* 1.3 62.6 - - - +
74C SER* 3.0 20.8 + - - -
96C GLN* 3.0 34.3 + - + +
98C GLY* 5.1 4.7 + - - -
140C ASP* 3.4 34.9 - - + +
141C ILE* 3.3 11.6 - - + +
186C CYS* 3.9 27.8 - - + +
7777C MG 4.2 1.0 - - - -
5K C 4.1 18.4 - - - +
6K C 6.1 0.2 - - - +
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Residues in contact with ALA 71 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C ASN* 3.0 14.2 + - - +
68C ALA* 3.6 10.8 - - - +
70C GLU* 1.3 76.9 - - - +
72C ILE* 1.3 63.1 + - + +
74C SER* 3.3 6.7 + - - -
75C GLU* 3.1 35.3 + - - +
96C GLN* 3.5 22.6 - - - +
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Residues in contact with ILE 72 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12C PHE* 3.5 38.3 - - + +
15C LYS* 3.8 42.5 - - + +
16C LEU* 3.8 25.1 - - + -
19C GLY* 6.1 0.2 - - - -
21C ILE* 4.3 11.0 - - + -
68C ALA* 2.9 26.2 + - + +
69C PHE 4.1 2.2 - - - +
71C ALA* 1.3 71.4 - - + +
73C CYS* 1.3 66.4 + - - +
75C GLU* 3.3 10.8 + - - +
76C PHE* 3.1 21.0 + - - +
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Residues in contact with CYS 73 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12C PHE* 3.9 14.6 - - - -
69C PHE* 2.9 59.1 + - - +
70C GLU 3.8 3.4 - - - +
72C ILE* 1.3 76.7 - - - +
74C SER* 1.3 64.4 + - - +
76C PHE* 3.2 3.6 + - - +
77C VAL* 3.0 31.3 + - + +
141C ILE* 3.9 13.2 - - + -
184C ILE* 5.8 0.4 - - + -
186C CYS* 4.0 6.3 - - - -
219C VAL* 3.7 22.9 - - + -
277C ILE* 5.1 2.2 - - + -
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Residues in contact with SER 74 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70C GLU 3.0 18.1 + - - -
71C ALA* 3.4 8.7 - - - -
73C CYS* 1.3 77.5 - - - +
75C GLU* 1.3 57.8 + - - +
77C VAL* 3.4 1.5 + - - -
78C GLN* 3.0 29.3 + - - +
94C VAL* 3.5 24.3 + - - +
95C LYS* 4.0 2.1 - - - -
96C GLN* 3.8 20.2 + - - -
141C ILE* 3.6 19.0 - - - +
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Residues in contact with GLU 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15C LYS* 2.7 48.5 + - - +
71C ALA* 3.1 22.2 + - - +
72C ILE* 3.8 8.4 - - - +
73C CYS 3.3 0.4 - - - -
74C SER* 1.3 74.4 - - - +
76C PHE* 1.3 65.8 + - - +
78C GLN* 3.4 7.2 + - - +
79C SER* 3.0 26.5 + - - -
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Residues in contact with PHE 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5C PHE* 4.7 4.0 - + + -
8C GLU* 3.7 40.6 - - + -
9C ARG* 3.8 14.6 - - + -
12C PHE* 3.9 24.0 - + + -
15C LYS* 5.3 1.3 - - - +
72C ILE 3.1 13.1 + - - +
73C CYS 3.6 6.3 - - - +
75C GLU* 1.3 76.3 - - - +
77C VAL* 1.3 71.6 + - + +
79C SER* 3.3 3.8 + - - -
80C ALA* 3.0 27.4 + - + +
277C ILE* 3.4 48.7 - - + -
278C SER* 4.0 13.5 - - - -
281C PRO* 3.6 25.1 - - + -
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Residues in contact with VAL 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C CYS* 3.0 23.1 + - + +
74C SER* 3.8 4.3 - - - +
76C PHE* 1.3 88.6 - - + +
78C GLN* 1.3 59.0 + - - +
81C PHE* 2.9 39.5 + - + +
94C VAL* 4.2 20.4 - - + -
141C ILE* 5.9 0.9 - - + -
143C VAL* 4.4 1.6 - - + -
184C ILE* 4.3 14.6 - - + -
277C ILE* 5.4 0.9 - - + -
280C LEU* 3.9 28.3 - - + -
281C PRO* 4.9 4.9 - - + +
284C LEU* 3.8 26.7 - - + -
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Residues in contact with GLN 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74C SER* 3.0 18.7 + - - +
75C GLU* 3.8 7.1 - - - +
77C VAL* 1.3 74.6 - - - +
79C SER* 1.3 80.2 + - - +
81C PHE* 4.2 1.0 - - - +
82C GLU* 3.1 52.1 + - - +
94C VAL* 3.9 33.0 - - + +
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Residues in contact with SER 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8C GLU* 2.3 36.2 + - - -
75C GLU 3.0 16.5 + - - -
76C PHE* 3.9 2.5 - - - -
78C GLN* 1.3 93.0 + - - +
80C ALA* 1.3 61.6 + - - +
82C GLU* 3.5 16.3 + - - +
83C LYS* 3.6 20.1 + - - +
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Residues in contact with ALA 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5C PHE* 3.6 31.0 - - + -
8C GLU* 3.8 9.1 + - + -
76C PHE* 3.0 25.8 + - + +
79C SER* 1.3 74.8 - - - +
81C PHE* 1.3 67.7 + - - +
83C LYS* 3.1 19.1 + - - +
84C LEU* 4.0 1.2 - - - +
281C PRO* 3.5 28.7 - - + -
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Residues in contact with PHE 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77C VAL* 2.9 28.3 + - + +
78C GLN* 4.2 2.2 - - - +
80C ALA* 1.3 76.5 - - - +
82C GLU* 1.3 64.7 + - - +
84C LEU* 2.9 25.4 + - + +
85C GLN* 4.2 0.5 + - - -
88C ARG* 4.2 12.6 - - + -
92C TRP* 3.6 55.5 - + + -
94C VAL* 5.2 5.4 - - + -
143C VAL* 4.6 12.8 - - + -
181C HIS* 4.2 7.6 - + - -
281C PRO* 3.5 24.3 - - + +
284C LEU* 3.5 40.8 - - + -
285C ALA* 4.0 9.6 - - + -
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Residues in contact with GLU 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C GLN* 3.1 43.4 + - - +
79C SER* 3.5 10.8 + - - +
81C PHE* 1.3 78.0 - - - +
83C LYS* 1.3 65.5 + - + +
84C LEU 3.2 1.6 + - - -
85C GLN* 3.8 17.2 + - - +
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Residues in contact with LYS 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157B GLU* 3.8 20.5 - - - +
159B LEU* 3.7 37.7 - - + +
4C LEU* 3.7 27.1 - - + -
5C PHE* 4.4 7.4 - - + -
8C GLU* 3.4 23.4 + - - +
79C SER* 3.6 16.7 + - - +
80C ALA 3.1 8.5 + - - +
81C PHE 3.0 1.2 - - - -
82C GLU* 1.3 84.4 + - + +
84C LEU* 1.3 57.0 + - - +
85C GLN* 3.4 2.5 - - - -
86C HIS* 3.5 19.6 + - - -
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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
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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) + - + + + + + -
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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