Contacts of the helix formed by residues 74 - 97 (chain C) in PDB entry 5B2G
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 74 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C ARG* 4.8 9.6 - - - +
67C TYR* 6.1 7.0 - - + +
72C ALA 4.1 5.6 - - - +
73C LEU* 1.3 84.7 - - + +
75C GLN* 1.3 64.9 + - - +
76C ASP* 3.3 4.6 + - + +
77C LEU* 3.6 38.7 + - + +
78C GLN* 3.6 11.4 + - - +
158C ARG* 6.2 1.3 - - - +
224D TYR* 5.3 5.6 - - - +
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Residues in contact with GLN 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C LEU* 3.4 18.1 + - + -
74C PRO* 1.3 71.7 - - - +
76C ASP* 1.3 83.0 + - - +
78C GLN* 3.3 12.8 + - - +
79C ALA* 3.3 11.3 + - - +
229D SER* 3.9 40.1 + - - +
230D ASN* 5.2 5.5 - - - +
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Residues in contact with ASP 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C PRO* 3.3 2.1 - - + -
75C GLN* 1.3 98.4 + - - +
77C LEU* 1.3 68.1 + - + +
79C ALA* 2.9 11.5 + - - +
80C ALA* 2.8 24.9 + - - +
138C TRP* 3.4 33.1 - - + -
139C THR* 5.7 0.9 - - + -
142C ASN* 3.2 24.4 + - - +
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Residues in contact with LEU 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TRP* 5.4 9.4 - - + -
31C ARG* 3.5 42.6 - - + +
48C GLU* 5.9 0.2 - - + -
49C GLY 3.8 22.7 - - - +
50C LEU* 4.2 15.4 - - + +
67C TYR* 5.3 5.4 - - + +
74C PRO* 3.6 24.2 + - + -
75C GLN 3.4 0.2 - - - -
76C ASP* 1.3 89.5 - - + +
78C GLN* 1.3 57.4 + - - +
79C ALA 3.2 0.2 - - - -
80C ALA* 3.2 10.0 + - + +
81C ARG* 2.9 31.7 + - - +
139C THR* 4.3 20.0 - - + -
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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
----------------------------------------------------------
1262A VAL* 4.3 25.2 - - + +
1263A VAL 5.6 5.2 - - - -
1264A GLY* 5.7 0.9 + - - -
70C LEU* 5.5 4.0 + - - +
73C LEU* 4.0 37.7 - - + +
74C PRO 3.6 9.6 + - - +
75C GLN* 3.3 13.0 + - - +
76C ASP 3.1 0.4 - - - -
77C LEU* 1.3 78.1 - - - +
79C ALA* 1.3 61.2 + - - +
81C ARG* 3.5 46.8 - - - +
82C ALA* 3.8 6.1 + - - +
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Residues in contact with ALA 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C GLN 3.3 8.3 + - - +
76C ASP* 2.9 12.0 + - - +
78C GLN* 1.3 77.7 - - - +
80C ALA* 1.3 63.3 + - - +
81C ARG 3.2 0.7 - - - -
82C ALA* 3.3 9.0 + - - +
83C LEU* 3.1 30.4 + - + +
138C TRP* 5.5 6.7 - - + -
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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
----------------------------------------------------------
30C TRP* 4.8 2.2 - - + -
50C LEU* 4.0 13.7 - - + -
76C ASP 2.8 7.2 + - - +
77C LEU* 3.2 21.7 + - + +
79C ALA* 1.3 75.5 - - - +
81C ARG* 1.3 64.3 + - - +
83C LEU* 3.7 1.7 - - - +
84C VAL* 3.0 31.6 + - - +
135C PRO* 4.1 23.8 - - + -
138C TRP* 5.9 2.6 - - + -
139C THR* 4.7 12.3 - - + -
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Residues in contact with ARG 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1259A LEU* 6.2 0.4 - - + -
1261A SER 5.6 0.2 + - - -
1262A VAL* 4.5 22.5 - - + +
50C LEU* 3.2 26.7 + - + +
51C TRP* 3.3 43.1 + - + +
67C TYR* 3.5 38.4 - - - +
70C LEU* 4.1 21.4 - - - +
77C LEU 2.9 16.8 + - - +
78C GLN* 3.5 43.7 - - - +
80C ALA* 1.3 77.3 - - - +
82C ALA* 1.3 57.5 + - - +
84C VAL* 4.0 1.0 - - - +
85C ILE* 3.0 38.0 + - + +
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Residues in contact with ALA 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1259A LEU* 4.4 23.1 - - + -
1262A VAL* 6.2 2.0 - - + -
78C GLN 3.8 4.7 + - - +
79C ALA* 3.3 13.3 + - - +
80C ALA 3.2 0.4 - - - -
81C ARG* 1.3 77.9 - - - +
83C LEU* 1.3 60.5 + - + +
85C ILE* 4.5 0.7 - - - -
86C ILE* 3.0 45.9 + - + +
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Residues in contact with LEU 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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79C ALA* 3.1 21.7 + - + +
80C ALA* 3.3 5.4 + - - +
82C ALA* 1.3 78.0 - - + +
84C VAL* 1.3 60.9 + - - +
86C ILE* 5.1 0.7 - - - -
87C SER* 3.2 21.1 + - - -
131C MET* 3.2 40.6 - - + +
134C VAL* 4.2 16.4 - - + -
135C PRO* 3.5 41.3 - - + -
138C TRP* 4.8 9.6 - - + +
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Residues in contact with VAL 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C VAL* 4.2 15.5 - - + +
24C CYS* 5.8 1.6 - - - -
25C CYS* 3.6 38.6 - - + +
30C TRP* 4.1 20.6 - - + -
50C LEU* 4.1 14.6 - - + -
80C ALA 3.0 17.0 + - - +
81C ARG 4.1 2.2 - - - +
83C LEU* 1.3 74.1 - - - +
85C ILE* 1.3 60.8 + - - +
87C SER* 3.3 6.6 + - - -
88C ILE* 2.9 31.1 + - + +
131C MET 5.3 0.7 - - - -
132C VAL* 6.0 3.6 - - + -
135C PRO* 4.2 11.7 - - + -
136C VAL* 5.1 3.8 - - + -
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Residues in contact with ILE 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1181A TRP* 3.6 19.5 - - + -
1255A ALA* 4.0 14.8 - - + +
1258A VAL* 3.9 19.5 - - + -
1259A LEU* 4.2 29.6 - - + -
1262A VAL* 5.8 0.9 - - + -
25C CYS* 5.1 0.2 - - - -
51C TRP* 3.5 26.2 - - + -
81C ARG* 3.0 28.4 + - + +
82C ALA* 3.9 3.8 - - - +
84C VAL* 1.3 73.2 - - - +
86C ILE* 1.3 67.9 + - - +
88C ILE* 2.9 21.1 + - - +
89C ILE* 3.0 31.1 + - + +
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Residues in contact with ILE 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1259A LEU* 4.4 20.0 - - + -
82C ALA* 3.0 28.8 + - + +
83C LEU* 5.3 0.4 - - - -
85C ILE* 1.3 75.5 - - - +
87C SER* 1.3 56.4 + - - +
89C ILE* 3.8 9.8 - - + +
90C VAL* 3.0 38.2 + - + +
131C MET* 3.6 20.0 - - + -
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Residues in contact with SER 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C VAL* 4.2 5.8 - - - +
83C LEU 3.2 19.4 + - - -
84C VAL* 3.3 7.8 + - - -
85C ILE 3.0 0.2 - - - -
86C ILE* 1.3 76.4 - - - +
88C ILE* 1.3 60.1 + - - +
90C VAL* 4.5 3.1 - - - -
91C ALA* 2.9 31.9 + - - +
128C ALA* 3.4 23.1 + - - +
131C MET* 3.5 10.5 - - - +
132C VAL* 3.1 28.3 - - - +
174C LEU* 5.0 0.7 - - - +
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Residues in contact with ILE 88 (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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1181A TRP* 4.1 11.7 - - + -
1185A MET* 3.9 14.6 - - - -
1251A ILE* 4.0 23.3 - - + -
18C TRP* 3.1 12.9 + - - +
21C VAL* 4.2 20.0 - - + -
22C MET* 3.9 20.6 - - + -
25C CYS* 3.8 33.2 - - + -
84C VAL* 2.9 25.8 + - + +
85C ILE* 2.9 7.6 + - - +
87C SER* 1.3 74.8 - - - +
89C ILE* 1.3 59.8 + - + +
91C ALA* 4.7 0.2 - - - -
92C ALA* 2.9 29.6 + - - +
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Residues in contact with ILE 89 (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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1251A ILE 5.7 0.2 - - - -
1252A ILE* 3.5 38.5 - - + +
1255A ALA* 3.7 23.3 - - + -
1256A LEU* 4.6 14.8 - - + -
1259A LEU* 5.3 3.8 - - + -
85C ILE* 3.0 38.2 + - + +
86C ILE* 3.8 10.1 - - + +
88C ILE* 1.3 77.3 - - + +
90C VAL* 1.3 69.5 + - + +
92C ALA* 3.0 8.8 + - - +
93C LEU* 2.9 31.4 + - + +
1252E ILE* 6.0 2.2 - - + -
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Residues in contact with VAL 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE* 3.0 38.7 + - + +
87C SER* 3.8 4.7 - - - +
89C ILE* 1.3 76.6 - - + +
91C ALA* 1.3 62.5 + - - +
93C LEU* 3.1 25.8 + - + +
94C GLY 3.1 1.0 + - - -
124C VAL* 3.0 48.3 - - + +
127C LEU* 5.0 7.4 - - + -
128C ALA* 4.1 10.8 - - + +
131C MET* 5.4 6.1 - - - -
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Residues in contact with ALA 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C TRP* 3.5 24.0 - - + -
21C VAL* 5.5 1.3 - - + -
87C SER* 2.9 18.6 + - - +
88C ILE* 4.7 0.2 - - - -
90C VAL* 1.3 76.5 - - - +
92C ALA* 1.3 57.7 + - - +
94C GLY* 2.9 5.1 + - - +
95C VAL* 2.9 29.6 + - - +
124C VAL* 4.3 4.5 - - - -
125C PHE* 3.6 13.0 - - + -
128C ALA* 3.8 16.6 - - + +
174C LEU* 4.8 9.4 - - + -
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Residues in contact with ALA 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1248A ILE* 4.0 9.8 - - + +
1251A ILE* 5.7 1.1 - - + -
1252A ILE* 3.7 21.5 - - + -
18C TRP* 3.6 26.6 - - + +
88C ILE* 2.9 22.8 + - + +
89C ILE 3.0 8.7 + - - +
91C ALA* 1.3 76.4 - - - +
93C LEU* 1.3 59.8 + - - +
95C VAL* 3.3 5.8 + - - +
96C LEU* 3.1 25.8 + - - +
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Residues in contact with LEU 93 (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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1252A ILE* 4.2 9.0 - - + -
89C ILE* 2.9 26.6 + - + +
90C VAL* 3.1 19.7 + - + +
92C ALA* 1.3 76.3 - - - +
94C GLY* 1.3 61.6 + - - +
96C LEU* 3.1 11.3 + - + +
97C LEU* 3.0 29.4 + - + +
124C VAL* 4.8 5.4 - - + -
1252E ILE* 6.4 0.2 - - + -
1256E LEU* 3.2 34.5 - - + -
1259E LEU* 3.9 19.8 - - + +
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Residues in contact with GLY 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C VAL 3.1 7.1 + - - -
91C ALA 2.9 8.5 + - - -
93C LEU* 1.3 77.4 - - - +
95C VAL* 1.3 58.4 + - - +
97C LEU* 3.4 16.7 + - - +
98C SER* 3.6 11.6 + - - -
121C ALA* 3.9 5.6 - - - +
124C VAL* 3.7 18.7 - - - +
125C PHE* 3.3 25.7 - - - -
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Residues in contact with VAL 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1214A TRP* 3.3 43.1 - - + -
1248A ILE* 4.2 5.2 - - + -
15C VAL* 4.3 18.4 - - + -
18C TRP* 3.9 31.4 - - + -
91C ALA 2.9 17.7 + - - +
92C ALA* 3.6 7.9 - - - +
93C LEU 3.2 0.2 - - - -
94C GLY* 1.3 75.3 - - - +
96C LEU* 1.3 65.2 + - - +
97C LEU 3.1 0.2 - - - -
98C SER* 3.2 13.6 + - - +
99C VAL* 3.3 14.0 + - + +
125C PHE* 4.1 13.2 - - + -
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Residues in contact with LEU 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1245A ALA* 4.2 15.9 - - + -
1248A ILE* 3.6 40.6 - - + -
1249A ILE* 4.8 8.3 - - + -
92C ALA 3.1 9.0 + - - +
93C LEU* 3.1 15.1 + - + +
95C VAL* 1.3 76.9 - - - +
97C LEU* 1.3 61.5 + - + +
99C VAL* 3.4 20.1 - - + +
100C VAL* 2.9 29.9 + - + +
1256E LEU* 4.6 23.3 - - + -
1259E LEU* 5.4 9.6 - - + -
1260E LEU* 4.0 28.3 - - + -
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Residues in contact with LEU 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 3.0 20.0 + - + +
94C GLY* 3.6 10.8 - - - +
95C VAL 3.1 0.6 - - - -
96C LEU* 1.3 81.4 - - + +
98C SER* 1.3 58.0 + - - +
99C VAL 3.5 0.4 - - - -
100C VAL* 3.8 7.5 - - + +
101C GLY* 3.6 20.1 + - - -
117C THR* 4.3 24.4 - - + +
118C MET* 4.3 6.6 - - - +
120C VAL* 4.3 14.6 - - + -
121C ALA* 3.8 32.8 - - + +
124C VAL* 4.8 6.7 - - + -
1259E LEU* 4.1 29.6 - - + -
1262E VAL* 5.2 8.5 - - + -
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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
------------------------------------------------------------
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