Contacts of the helix formed by residues 82 - 115 (chain C) in PDB entry 1SIW
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 82 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C ALA* 3.6 20.6 - - - +
80C TRP 3.7 2.2 - - - +
81C LEU* 1.3 92.3 - - - +
83C ILE* 1.3 69.6 + - + +
84C GLU* 4.5 9.9 - - + +
85C VAL* 2.9 41.0 + - + +
86C LYS* 3.0 10.8 + - - +
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Residues in contact with ILE 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C PRO* 1.3 73.4 - - + +
84C GLU* 1.3 62.1 + - + +
86C LYS* 3.3 14.1 + - + +
87C GLN* 3.0 25.3 + - - +
152C ASP 4.0 13.7 - - - +
153C GLY* 3.4 23.1 - - - +
156C MET* 3.4 35.9 - - + -
157C MET* 3.9 38.8 - - + +
160C VAL* 5.2 3.6 - - + -
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Residues in contact with GLU 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C PRO* 4.6 9.1 - - + +
83C ILE* 1.3 81.1 - - + +
85C VAL* 1.3 74.9 + - + +
87C GLN* 3.7 6.2 + - - +
88C LYS* 3.2 40.5 + - - +
151C MET 3.6 21.2 - - - +
152C ASP* 4.1 23.6 - - - +
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Residues in contact with VAL 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C TRP 5.1 2.9 - - - +
81C LEU* 4.5 9.9 - - + -
82C PRO* 2.9 39.3 + - + +
84C GLU* 1.3 80.6 - - + +
86C LYS* 1.3 67.3 + - - +
88C LYS* 3.2 11.6 + - + +
89C MET* 3.1 37.3 + - + +
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Residues in contact with LYS 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C PHE 5.4 2.9 + - - -
69C GLY* 5.0 18.8 + - - +
72C THR* 4.7 24.3 + - - +
81C LEU* 3.3 45.1 + - + +
82C PRO 3.0 14.3 + - - +
83C ILE* 3.5 18.8 - - + +
85C VAL* 1.3 77.5 - - - +
87C GLN* 1.3 57.5 + - - +
89C MET* 3.2 16.6 + - - +
90C ALA* 3.0 27.0 + - - +
156C MET* 4.2 12.2 - - + +
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Residues in contact with GLN 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C ILE 3.0 16.1 + - - +
84C GLU* 3.9 7.9 - - - +
85C VAL 3.2 0.2 - - - -
86C LYS* 1.3 74.8 - - - +
88C LYS* 1.3 60.3 + - + +
90C ALA* 3.2 1.4 + - - +
91C MET* 2.9 44.6 + - + +
147C SER* 3.0 37.1 + - - -
150C HIS 3.2 13.8 + - - +
151C MET* 3.8 18.8 - - + +
153C GLY* 3.2 22.5 - - - -
155C GLU* 5.0 1.4 + - - +
156C MET* 3.5 30.7 + - - +
807C HEM 4.1 11.1 - - - +
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Residues in contact with LYS 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C GLU* 3.2 28.2 + - - +
85C VAL* 3.2 14.5 + - + +
87C GLN* 1.3 78.7 - - + +
89C MET* 1.3 63.8 + - + +
91C MET* 3.5 6.0 + - - -
92C PHE* 3.1 40.2 + - + +
151C MET* 4.1 40.9 + - + +
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Residues in contact with MET 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C LEU* 5.8 5.2 - - - -
85C VAL* 3.1 29.0 + - + +
86C LYS* 3.4 18.2 - - - +
88C LYS* 1.3 77.0 - - + +
90C ALA* 1.3 57.1 + - - +
92C PHE* 3.3 0.8 + - - -
93C ALA* 2.8 44.1 + - + +
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Residues in contact with ALA 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C GLY* 6.6 0.7 - - - -
86C LYS 3.0 13.2 + - - +
87C GLN* 3.2 8.0 + - - +
89C MET* 1.3 76.1 - - - +
91C MET* 1.3 57.9 + - + +
94C GLY* 2.9 33.6 + - - +
95C GLY 3.0 1.9 + - - -
156C MET* 4.1 19.1 - - + -
807C HEM 3.4 27.9 - - + +
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Residues in contact with MET 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C GLN* 2.9 42.6 + - + +
88C LYS* 3.8 5.6 - - - +
89C MET 3.3 0.2 - - - -
90C ALA* 1.3 77.7 - - + +
92C PHE* 1.3 68.7 + - + +
95C GLY* 3.2 18.4 - - - +
144C ILE* 3.7 55.4 - - + +
147C SER* 4.4 8.5 - - - -
148C ALA* 3.9 20.0 - - + -
151C MET* 3.9 25.8 - - + +
807C HEM 5.0 3.1 - - - +
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Residues in contact with PHE 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C LYS* 3.1 37.2 + - + +
89C MET* 4.3 1.1 - - - +
91C MET* 1.3 90.1 - - + +
93C ALA* 1.3 62.1 + - - +
96C ALA* 2.8 31.9 + - - +
151C MET* 5.8 3.8 - - + -
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Residues in contact with ALA 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C MET* 2.8 24.1 + - + +
92C PHE* 1.3 75.8 - - - +
94C GLY* 1.3 63.1 + - - +
96C ALA* 3.7 4.6 - - - +
97C SER* 3.0 25.6 + - - -
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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
----------------------------------------------------------
61C GLY 5.8 1.8 - - - -
62C ILE* 3.2 17.8 - - - +
65C GLY* 6.4 2.0 - - - -
89C MET 3.4 1.4 + - - -
90C ALA* 2.9 19.1 + - - +
93C ALA* 1.3 77.3 - - - +
95C GLY* 1.3 56.9 + - - +
97C SER* 3.4 2.4 + - - -
98C GLY* 3.0 24.4 + - - -
807C HEM 3.1 19.5 - - - +
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Residues in contact with GLY 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C ALA 3.0 8.5 + - - -
91C MET 3.2 20.1 + - - -
92C PHE 3.7 0.2 - - - -
93C ALA 3.2 0.6 - - - -
94C GLY* 1.3 78.3 - - - +
96C ALA* 1.3 60.7 + - - +
98C GLY 3.4 1.0 + - - -
99C VAL* 3.1 28.2 + - - +
141C LEU* 3.6 6.0 - - - +
144C ILE* 3.9 19.5 - - - -
807C HEM 4.1 0.4 - - - +
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Residues in contact with ALA 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C PHE 2.8 17.2 + - - +
93C ALA* 3.7 5.4 - - - +
95C GLY* 1.3 73.2 - - - +
97C SER* 1.3 66.5 + - - +
99C VAL* 3.0 13.6 + - - +
100C LEU* 2.9 32.2 - - + +
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Residues in contact with SER 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C ILE 4.8 0.9 + - - -
58C GLY* 3.4 26.6 - - - -
61C GLY* 3.5 18.0 - - - -
62C ILE* 3.6 13.2 - - - -
93C ALA 3.0 17.7 + - - -
94C GLY* 3.6 6.2 - - - -
96C ALA* 1.3 76.1 - - - +
98C GLY* 1.3 57.4 + - - +
99C VAL 3.2 0.2 + - - -
100C LEU* 3.3 6.9 + - - +
101C CYS* 2.9 29.5 + - - +
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Residues in contact with GLY 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ILE* 3.5 4.2 - - - +
94C GLY 3.0 12.0 + - - -
95C GLY 3.4 2.0 + - - -
96C ALA 3.2 0.2 - - - -
97C SER* 1.3 76.8 - - - +
99C VAL* 1.3 57.1 + - - +
101C CYS* 3.9 2.0 - - - -
102C LEU* 3.1 28.8 + - - +
137C CYS* 3.3 11.7 - - - -
141C LEU* 3.5 8.4 - - - +
807C HEM 3.8 26.7 - - - -
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Residues in contact with VAL 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C GLY 3.1 17.7 - - - +
96C ALA* 3.0 11.4 + - - +
98C GLY* 1.3 77.5 - - - +
100C LEU* 1.3 69.3 + - + +
102C LEU* 3.6 2.8 + - - +
103C ILE* 2.8 44.2 + - + +
141C LEU* 4.4 14.8 - - + -
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Residues in contact with LEU 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C LEU* 3.4 41.8 - - + +
57C ILE* 4.9 14.6 - - + -
58C GLY* 4.3 9.2 - - - -
96C ALA* 2.9 31.6 - - + +
97C SER* 3.7 9.4 - - - +
99C VAL* 1.3 79.7 - - + +
101C CYS* 1.3 66.3 + - - +
103C ILE* 3.4 5.4 + - - +
104C GLY 3.0 19.1 + - - -
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Residues in contact with CYS 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C LEU 3.6 9.8 + - - -
55C PHE* 3.7 17.2 - - - +
58C GLY 3.8 0.9 - - - -
59C ILE* 3.7 46.0 - - - +
62C ILE* 5.0 1.6 - - + -
97C SER 2.9 18.0 + - - +
98C GLY* 3.9 6.1 - - - +
100C LEU* 1.3 78.1 - - - +
102C LEU* 1.3 50.9 + - - +
104C GLY* 3.2 0.5 + - - -
105C GLY* 2.7 35.0 + - - -
133C LEU 5.6 0.2 - - - -
137C CYS* 3.6 22.9 - - - -
807C HEM 4.6 1.8 - - - -
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Residues in contact with LEU 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C GLY 3.1 17.5 + - - +
99C VAL* 4.0 3.1 - - - +
101C CYS* 1.3 79.4 - - - +
103C ILE* 1.3 63.6 + - + +
105C GLY* 4.9 1.1 - - - -
106C VAL* 2.9 53.0 + - + +
134C VAL* 3.7 31.2 - - + +
137C CYS* 3.9 9.6 - - + -
138C ALA* 4.4 18.8 - - + +
141C LEU* 4.0 20.0 - - + -
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Residues in contact with ILE 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU* 5.5 0.2 - - + -
54C LEU* 3.9 19.3 - - + -
99C VAL* 2.8 34.9 + - + +
100C LEU* 3.7 5.6 - - - +
102C LEU* 1.3 78.3 - - + +
104C GLY* 1.3 68.1 + - - +
106C VAL* 3.3 5.8 + - - +
107C LEU* 3.0 39.0 + - + +
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Residues in contact with GLY 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C ALA* 3.4 25.3 - - - +
54C LEU* 3.9 5.4 - - - +
55C PHE* 3.9 10.8 - - - -
100C LEU 3.0 14.5 + - - -
101C CYS 3.7 1.6 - - - -
103C ILE* 1.3 75.7 - - - +
105C GLY* 1.3 57.8 - - - +
107C LEU* 3.0 6.1 + - - +
108C LEU* 2.8 32.4 + - - +
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Residues in contact with GLY 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C PHE* 3.5 24.8 - - - -
101C CYS 2.7 16.7 + - - -
102C LEU* 3.8 1.8 - - - -
104C GLY* 1.3 71.9 - - - +
106C VAL* 1.3 56.0 + - - +
108C LEU* 3.3 6.2 + - - +
109C LEU* 3.0 29.6 + - - +
130C LEU* 4.3 2.9 - - - +
134C VAL* 3.7 18.8 - - - +
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Residues in contact with VAL 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C LEU* 2.9 46.3 + - + +
103C ILE* 3.7 5.2 - - + +
105C GLY* 1.3 75.3 - - - +
107C LEU* 1.3 61.3 + - + +
109C LEU* 3.3 8.1 + - + +
110C LYS* 3.0 29.7 + - + +
134C VAL* 4.2 13.2 - - + -
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Residues in contact with LEU 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C GLY 5.7 0.4 - - - +
50C LEU* 3.7 30.7 - - + -
51C ALA* 3.8 18.2 - - + -
103C ILE* 3.0 34.3 + - + +
104C GLY* 3.5 5.6 - - - +
106C VAL* 1.3 78.4 - - + +
108C LEU* 1.3 63.6 + - - +
110C LYS* 3.4 16.8 + - + +
111C ARG* 3.0 24.0 + - - +
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Residues in contact with LEU 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C MET* 3.7 31.2 - - + -
51C ALA* 3.8 16.4 - - + +
52C SER* 4.1 11.7 - - - +
55C PHE* 3.7 41.1 - - + -
56C HIS* 5.7 1.1 - - + -
104C GLY 2.8 15.2 + - - +
105C GLY* 3.6 4.7 - - - +
107C LEU* 1.3 77.3 - - - +
109C LEU* 1.3 56.3 + - - +
111C ARG* 3.3 7.4 + - - +
112C ARG* 2.8 30.0 + - - +
130C LEU* 3.8 13.6 - - + +
806C HEM 4.0 31.4 - - + +
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Residues in contact with LEU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C GLY 3.0 17.1 + - - +
106C VAL* 3.7 6.7 - - + +
108C LEU* 1.3 74.9 - - - +
110C LYS* 1.3 65.7 + - - +
112C ARG* 3.4 4.2 + - + -
113C LEU* 3.0 55.7 + - + +
127C ILE* 4.6 6.1 - - + +
130C LEU* 3.5 23.1 - - + +
131C SER* 3.7 35.9 - - - +
134C VAL* 4.4 17.0 - - + -
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Residues in contact with LYS 110 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C VAL* 3.0 20.7 + - + +
107C LEU* 3.6 19.1 - - + +
109C LEU* 1.3 76.2 - - - +
111C ARG* 1.3 58.8 + - - +
113C LEU* 5.4 0.2 - - - -
114C PHE* 2.9 62.6 + - + +
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Residues in contact with ARG 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C SER* 3.1 43.8 + - - -
44C ASP* 2.7 32.8 + - - +
46C LYS 4.2 10.5 + - - -
47C GLY 5.6 0.9 - - - -
48C MET* 3.3 41.5 - - - +
107C LEU 3.0 14.2 + - - +
108C LEU* 3.4 11.4 + - - +
110C LYS* 1.3 78.8 - - - +
112C ARG* 1.3 59.1 + - - +
115C SER* 2.7 50.0 + - - +
118C VAL* 3.6 23.7 - - + +
806C HEM 4.2 8.9 + - - -
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Residues in contact with ARG 112 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ALA 5.2 0.2 + - - -
40C SER* 3.7 22.6 + - - -
108C LEU 2.8 20.2 + - - +
109C LEU* 3.9 8.3 - - + +
111C ARG* 1.3 74.4 - - - +
113C LEU* 1.3 60.7 + - + +
118C VAL* 3.5 22.0 - - + +
119C ARG* 3.4 27.4 - - - -
122C THR* 2.6 49.6 + - - +
126C ASP* 4.0 21.9 + - - +
127C ILE* 4.1 18.6 - - + +
130C LEU* 4.5 4.5 - - + -
202C ARG* 3.3 21.5 - - - +
806C HEM 2.8 38.9 + - - +
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Residues in contact with LEU 113 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C LEU* 3.0 44.0 + - + +
110C LYS* 5.4 0.2 - - - -
112C ARG* 1.3 79.3 - - - +
114C PHE* 1.3 88.8 + - + +
119C ARG* 2.8 44.7 + - - +
127C ILE* 3.9 38.8 - - + -
131C SER* 5.7 0.4 - - - +
----------------------------------------------------------
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Residues in contact with PHE 114 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C LYS* 2.9 49.6 + - + +
113C LEU* 1.3 105.8 - - + +
115C SER* 1.3 59.6 + - - +
116C PRO* 3.1 13.7 - - - +
119C ARG* 5.1 3.6 - - - -
----------------------------------------------------------
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Residues in contact with SER 115 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ASP* 2.9 36.2 + - - +
110C LYS 4.1 0.2 + - - -
111C ARG* 2.7 35.9 + - - +
114C PHE* 1.3 70.3 - - - +
116C PRO* 1.3 62.9 - - - +
117C ARG* 4.5 1.4 + - - +
118C VAL* 2.9 12.1 + - - +
119C ARG* 2.8 31.7 + - - -
----------------------------------------------------------
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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).
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