Contacts of the helix formed by residues 82 - 111 (chain I) in PDB entry 2X17
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 SER 82 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I TYR* 3.4 9.1 + - - -
80I TRP* 3.3 1.8 - - - +
81I GLU* 1.3 79.4 - - - +
83I PRO* 1.4 69.9 - - - +
84I LEU* 3.7 13.0 + - - +
85I LYS* 3.1 28.4 + - - +
86I ALA* 2.9 27.7 + - - +
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Residues in contact with PRO 83 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I TYR* 3.7 6.5 - - + +
31I PHE* 3.6 28.5 - - + -
34I LEU* 4.2 16.8 - - + -
36I LEU* 4.2 10.1 - - + -
39I PHE* 5.2 0.4 - - + -
82I SER* 1.4 88.9 - - - +
84I LEU* 1.3 60.0 + - - +
86I ALA* 3.4 4.7 + - + +
87I PHE* 3.2 21.0 + - - -
141I LEU* 3.5 27.3 - - + +
151I LEU* 4.4 18.4 - - + -
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Residues in contact with LEU 84 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82I SER* 3.1 11.2 - - - +
83I PRO* 1.3 80.1 - - - +
85I LYS* 1.3 62.6 + - + +
87I PHE* 3.4 3.6 + - - +
88I GLU* 3.0 47.3 + - - +
138I LEU* 3.9 7.8 - - + +
141I LEU* 3.7 25.0 - - + +
142I LYS* 3.5 47.3 - - + +
145I LYS* 5.3 13.2 - - + -
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Residues in contact with LYS 85 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80I TRP* 3.8 7.7 - - + -
81I GLU* 4.3 30.1 - - + +
82I SER* 3.1 26.5 + - - +
84I LEU* 1.3 83.6 - - + +
86I ALA* 1.3 58.5 + - - +
88I GLU* 3.4 27.8 + - + +
89I ALA* 3.2 26.5 + - - +
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Residues in contact with ALA 86 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27I MET* 3.5 19.2 - - - +
30I TYR* 4.0 11.2 - - + -
31I PHE* 4.0 22.0 - - + -
80I TRP* 3.7 25.5 - - + -
82I SER 2.9 12.2 + - - +
83I PRO 3.5 9.2 - - - +
84I LEU 3.2 0.2 - - - -
85I LYS* 1.3 77.1 - - - +
87I PHE* 1.3 58.7 + - - +
89I ALA* 3.5 1.7 + - - +
90I ALA* 3.1 19.9 + - - +
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Residues in contact with PHE 87 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31I PHE* 3.8 9.0 - + - -
39I PHE* 3.6 29.2 - + - -
42I TRP* 4.3 14.4 - + - -
43I MET* 3.7 29.4 - - + -
83I PRO 3.2 14.9 + - - +
84I LEU 4.0 2.5 - - - +
86I ALA* 1.3 72.8 - - - +
88I GLU* 1.3 60.1 + - - +
89I ALA 3.3 0.4 - - - -
90I ALA* 3.5 4.6 - - + +
91I TYR* 2.8 31.7 + - - +
134I VAL* 3.7 33.9 - - + +
137I ILE* 3.7 38.8 - - + -
138I LEU* 3.5 11.9 - - + +
141I LEU* 3.7 23.3 - - + -
158I LEU* 4.9 0.7 - - + -
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Residues in contact with GLU 88 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84I LEU* 3.0 40.1 + - + +
85I LYS* 3.4 38.7 + - + +
86I ALA 3.3 0.4 - - - -
87I PHE* 1.3 77.7 - - - +
89I ALA* 1.3 56.6 + - - +
91I TYR* 3.7 3.1 + - - +
92I GLU* 3.1 28.6 + - - +
138I LEU* 3.7 23.3 - - + -
142I LYS* 4.2 13.3 - - - -
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Residues in contact with ALA 89 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23I LEU* 5.2 0.7 - - - +
27I MET* 4.3 6.6 - - + +
80I TRP* 3.5 29.2 - - + +
85I LYS 3.2 12.1 + - - +
86I ALA 3.7 2.7 - - - +
87I PHE 3.3 0.2 - - - -
88I GLU* 1.3 74.5 - - - +
90I ALA* 1.3 60.7 + - - +
92I GLU* 3.6 13.0 + - - +
93I HIS* 3.0 27.2 + - - +
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Residues in contact with ALA 90 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24I TYR* 3.7 16.4 + - + -
27I MET* 3.8 22.4 - - + +
43I MET* 4.8 5.4 - - + -
86I ALA 3.1 14.5 + - - +
87I PHE* 3.2 12.5 + - + +
89I ALA* 1.3 76.0 - - - +
91I TYR* 1.3 58.9 + - - +
93I HIS* 3.3 6.7 + - - +
94I GLU* 2.9 32.1 + - - +
134I VAL* 4.1 12.6 - - + -
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Residues in contact with TYR 91 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87I PHE 2.8 16.6 + - - +
88I GLU 4.0 3.4 - - - +
90I ALA* 1.3 73.2 - - - +
92I GLU* 1.3 60.1 + - - +
94I GLU* 3.4 3.3 + - + +
95I LYS* 3.1 57.0 + - + +
131I GLU* 3.7 47.0 + - + -
134I VAL* 3.7 10.7 - - + +
135I LYS* 3.5 38.2 - - + +
138I LEU* 3.6 22.2 - - + -
1J MET* 4.7 16.0 + - + -
65J ASN* 4.9 8.0 + - - +
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Residues in contact with GLU 92 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88I GLU 3.1 19.6 + - - +
89I ALA* 3.7 11.6 - - - +
91I TYR* 1.3 78.2 - - - +
93I HIS* 1.3 56.8 + - - +
95I LYS* 3.5 18.8 + - - +
96I PHE* 3.2 23.2 + - - +
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Residues in contact with HIS 93 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19I TYR* 3.7 30.7 - + - -
20I SER* 3.0 34.1 + - - -
23I LEU* 3.5 23.5 - - + +
24I TYR* 4.3 12.6 - + - -
89I ALA 3.0 18.1 + - - +
90I ALA* 3.3 5.4 + - - +
92I GLU* 1.3 74.4 - - - +
94I GLU* 1.3 61.4 + - - +
96I PHE* 3.1 32.3 + + - +
97I ILE* 2.9 36.5 + - + +
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Residues in contact with GLU 94 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20I SER* 5.7 0.3 + - - -
24I TYR* 2.6 31.4 + - - +
46I GLN* 5.6 0.3 - - - -
50I GLU* 3.8 2.6 - - - +
90I ALA 2.9 14.8 + - - +
91I TYR* 3.6 9.0 - - - +
92I GLU 3.3 0.2 - - - -
93I HIS* 1.3 79.6 - - - +
95I LYS* 1.3 56.1 + - - +
97I ILE* 3.5 6.2 + - - +
98I SER* 2.9 32.5 + - - -
127I GLN* 2.8 30.3 + - - +
130I GLU* 3.0 37.7 - - - +
131I GLU* 4.0 17.5 + - + +
134I VAL* 4.0 19.6 - - + +
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Residues in contact with LYS 95 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91I TYR* 3.1 46.8 + - + +
92I GLU* 3.7 17.7 - - - +
94I GLU* 1.3 74.9 - - - +
96I PHE* 1.3 58.2 + - - +
98I SER* 3.7 6.8 - - - -
99I LYS* 2.9 30.4 + - - +
102I TYR* 5.8 0.2 - - - -
131I GLU* 3.6 21.5 - - - +
1J MET* 3.7 32.2 - - + +
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Residues in contact with PHE 96 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16I ARG* 4.0 35.2 - - + -
19I TYR* 6.1 1.3 - + - -
92I GLU 3.2 14.6 + - - +
93I HIS* 3.1 33.8 + + - +
95I LYS* 1.3 75.2 - - - +
97I ILE* 1.3 71.0 + - + +
99I LYS* 3.4 11.1 + - + +
100I SER* 3.1 25.2 + - - -
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Residues in contact with ILE 97 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13I GLN* 3.9 6.3 - - - +
16I ARG* 3.9 28.0 - - + +
17I GLU* 3.8 17.5 - - - +
20I SER* 3.4 25.4 - - - +
50I GLU* 5.7 1.1 - - - +
93I HIS* 2.9 36.7 + - + +
94I GLU* 3.9 9.0 - - - +
95I LYS 3.4 0.2 - - - -
96I PHE* 1.3 81.1 - - + +
98I SER* 1.3 65.6 + - - +
100I SER* 2.7 18.8 + - - -
101I ILE* 3.0 18.2 + - + +
127I GLN* 3.6 29.2 - - - +
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Residues in contact with SER 98 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94I GLU 2.9 17.7 + - - -
95I LYS* 3.7 5.2 - - - -
97I ILE* 1.3 77.0 - - - +
99I LYS* 1.3 60.6 + - - +
101I ILE* 3.2 9.9 + - - +
102I TYR* 3.1 44.5 + - - -
127I GLN* 3.4 26.4 + - - +
131I GLU* 2.7 28.4 + - - -
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Residues in contact with LYS 99 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95I LYS 2.9 19.1 + - - +
96I PHE* 3.6 12.8 - - + +
97I ILE 3.3 0.2 - - - -
98I SER* 1.3 76.5 - - - +
100I SER* 1.3 56.9 + - - +
102I TYR* 3.3 17.8 + - + +
103I GLU* 3.1 46.2 + - + +
----------------------------------------------------------
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Residues in contact with SER 100 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13I GLN* 3.0 24.2 + - - -
16I ARG* 3.8 26.2 + - - -
96I PHE* 3.1 17.3 + - - -
97I ILE* 2.7 23.9 + - - -
99I LYS* 1.3 74.0 - - - +
101I ILE* 1.3 61.8 + - - +
102I TYR 3.4 0.2 - - - -
103I GLU* 3.9 14.2 - - - +
104I LEU* 3.2 27.0 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13I GLN* 3.7 33.2 - - + +
17I GLU* 4.7 3.4 - - - +
57I PHE* 4.1 13.5 - - + -
97I ILE* 3.0 22.4 + - + +
98I SER* 3.4 9.6 - - - +
99I LYS 3.2 0.2 - - - -
100I SER* 1.3 75.6 - - - +
102I TYR* 1.3 62.1 + - + +
104I LEU* 3.3 5.4 + - + +
105I ALA* 3.0 26.5 + - - +
120I LEU* 4.2 12.8 - - + +
123I PHE* 4.1 16.2 - - + +
124I ILE* 3.8 37.9 - - + +
127I GLN* 4.5 13.7 - - + -
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Residues in contact with TYR 102 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95I LYS 5.8 0.2 - - - -
98I SER* 3.1 34.3 + - - -
99I LYS* 3.3 18.1 + - + +
101I ILE* 1.3 82.4 - - + +
103I GLU* 1.3 57.6 + - + +
105I ALA* 3.1 7.3 + - - +
106I ALA* 2.9 29.1 + - - +
124I ILE* 4.5 10.5 - - + -
131I GLU* 4.7 0.7 + - - -
64J ARG* 3.6 14.4 + - - -
112J LYS 5.5 2.7 - - - -
113J ASP* 5.4 0.8 + - - -
114J TYR* 3.6 49.3 - + + -
115J SER* 2.7 27.7 + - - -
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Residues in contact with GLU 103 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16I ARG* 5.7 2.4 + - - -
99I LYS* 3.1 40.2 + - + +
100I SER* 3.9 13.1 - - - +
101I ILE 3.3 0.2 - - - -
102I TYR* 1.3 75.9 - - + +
104I LEU* 1.3 57.2 + - - +
106I ALA* 3.8 7.6 - - - +
107I LEU* 3.1 26.9 + - - +
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Residues in contact with LEU 104 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6I MET* 4.1 19.6 - - - +
9I ALA* 3.8 36.1 - - + +
10I LEU* 4.1 10.8 - - + -
13I GLN* 3.6 38.6 - - + +
16I ARG* 5.4 1.3 - - - +
57I PHE* 4.4 3.8 - - + -
100I SER 3.2 15.4 + - - +
101I ILE* 3.5 9.6 - - + +
102I TYR 3.3 0.2 - - - -
103I GLU* 1.3 75.6 - - - +
105I ALA* 1.3 59.5 + - - +
107I LEU* 3.4 5.4 + - + +
108I ALA* 3.0 29.5 + - - +
120I LEU* 3.6 26.0 - - + +
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Residues in contact with ALA 105 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101I ILE 3.0 13.2 + - - +
102I TYR* 3.1 10.7 + - - +
104I LEU* 1.3 76.0 - - - +
106I ALA* 1.3 58.2 + - - +
108I ALA* 3.5 0.7 + - - -
109I GLU* 3.1 32.2 + - - +
117I ARG* 3.7 19.7 - - - +
120I LEU* 3.7 11.6 - - + +
124I ILE* 4.5 10.1 - - + -
114J TYR* 3.8 25.4 - - + -
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Residues in contact with ALA 106 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102I TYR 2.9 14.2 + - - +
103I GLU* 3.8 8.3 - - - +
105I ALA* 1.3 75.4 - - - +
107I LEU* 1.3 58.3 + - - +
109I GLU* 3.4 5.7 + - - +
110I GLU* 3.0 30.7 + - - +
112J LYS* 6.6 0.2 - - - -
114J TYR* 3.5 19.4 + - + +
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Residues in contact with LEU 107 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5I ARG* 4.2 33.2 - - + +
6I MET* 3.7 18.9 - - + +
9I ALA* 3.8 29.6 - - + -
103I GLU 3.1 19.1 + - - +
104I LEU* 3.7 6.5 - - + +
106I ALA* 1.3 76.7 - - - +
108I ALA* 1.3 60.7 + - - +
110I GLU* 3.6 17.9 + - - +
111I GLU* 3.2 34.9 + - + +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6I MET* 3.7 15.7 - - + +
104I LEU 3.0 17.0 + - - +
105I ALA* 3.7 7.2 - - - +
106I ALA 3.3 0.2 - - - -
107I LEU* 1.3 77.4 - - - +
109I GLU* 1.3 59.7 + - - +
111I GLU 3.7 0.3 + - - -
112I LYS 3.2 2.3 + - - -
113I ASP* 2.8 48.6 + - - +
116I THR* 4.2 8.1 - - + -
117I ARG* 3.8 21.1 - - + +
120I LEU* 4.5 0.2 - - + -
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Residues in contact with GLU 109 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G GLU* 6.2 0.4 - - - +
105I ALA 3.1 14.3 + - - +
106I ALA* 3.8 5.1 - - - +
108I ALA* 1.3 73.5 - - - +
110I GLU* 1.3 65.0 + - - +
112I LYS* 3.4 16.0 + - - +
117I ARG* 3.2 38.3 + - + +
114J TYR* 2.9 31.5 + - - -
----------------------------------------------------------
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Residues in contact with GLU 110 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106I ALA 3.0 17.7 + - - +
107I LEU* 3.9 19.3 - - - +
108I ALA 3.3 0.2 - - - -
109I GLU* 1.3 78.7 - - - +
111I GLU* 1.3 61.8 + - + +
112I LYS* 3.2 7.2 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I SER* 2.7 33.7 + - - -
5I ARG* 3.8 24.4 - - - +
6I MET* 3.9 14.5 + - - +
107I LEU* 3.2 26.8 + - + +
108I ALA 4.3 2.2 - - - +
110I GLU* 1.3 78.2 - - + +
112I LYS* 1.3 69.1 + - - +
113I ASP* 3.3 11.2 + - + +
----------------------------------------------------------
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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