Contacts of the helix formed by residues 82 - 111 (chain I) in PDB entry 3E1N
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 ASP 82 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35I TRP* 4.3 6.1 - - - -
80I GLY 3.7 0.6 - - - -
81I GLU* 1.3 79.7 - - - +
83I VAL* 1.3 66.5 + - - +
84I GLU* 3.5 10.2 + - - +
85I GLU* 3.0 40.2 + - - +
86I MET* 2.9 26.3 + - - +
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Residues in contact with VAL 83 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32I PHE* 4.0 17.9 - - + -
35I TRP* 4.3 7.7 - - + -
37I LEU* 3.8 27.4 - - + -
40I LEU* 4.1 12.6 - - + -
82I ASP* 1.3 72.2 - - - +
84I GLU* 1.3 59.8 + - - +
86I MET* 3.2 10.4 + - - +
87I LEU* 2.8 47.9 + - + +
141I ILE* 4.6 2.9 - - + -
146I LEU* 5.0 7.9 - - + -
149I TYR* 4.1 12.3 - - + -
150I LEU* 3.8 15.7 - - + -
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Residues in contact with GLU 84 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82I ASP* 3.3 8.5 + - - +
83I VAL* 1.3 74.8 - - - +
85I GLU* 1.3 67.8 + - - +
86I MET 3.0 0.3 + - - -
87I LEU* 3.1 2.3 + - - +
88I ARG* 2.8 62.8 + - - +
138I LEU* 3.9 18.6 - - + +
141I ILE* 4.2 22.9 - - + +
142I GLN* 3.7 20.6 + - - -
146I LEU* 5.7 4.1 - - + +
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Residues in contact with GLU 85 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78I ASN* 5.4 3.0 - - - +
80I GLY* 3.4 21.5 - - - -
81I GLU* 3.6 22.7 + - - +
82I ASP* 3.0 33.3 + - - +
84I GLU* 1.3 76.9 - - - +
86I MET* 1.3 58.2 + - - +
88I ARG* 3.4 8.5 + - - +
89I SER* 3.0 29.1 + - - -
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Residues in contact with MET 86 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I HIS* 3.3 60.4 - - + +
31I MET* 3.7 38.1 - - + -
32I PHE* 3.5 28.3 - - + -
35I TRP* 3.7 22.0 - - + -
79I ILE 3.3 11.2 - - - +
80I GLY 4.3 6.3 - - - +
82I ASP 2.9 24.1 + - - +
83I VAL* 3.4 11.9 - - - +
85I GLU* 1.3 76.7 - - - +
87I LEU* 1.3 65.8 + - - +
89I SER* 3.2 2.0 + - - -
90I ASP* 3.1 18.5 + - - -
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Residues in contact with LEU 87 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32I PHE* 3.8 30.5 - - + -
40I LEU* 5.1 2.7 - - + -
44I GLU* 4.2 13.9 - - - +
83I VAL* 2.8 31.7 + - + +
86I MET* 1.3 76.5 - - - +
88I ARG* 1.3 63.5 + - - +
90I ASP* 3.1 9.1 + - - +
91I LEU* 3.0 21.8 + - - +
133I TRP* 4.9 7.2 - - + -
134I LEU* 3.9 16.1 - - + +
137I GLU* 4.3 15.3 - - + -
138I LEU* 3.7 18.4 - - + -
141I ILE* 4.3 12.3 - - + -
149I TYR* 3.9 17.9 - - - +
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Residues in contact with ARG 88 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84I GLU* 2.8 51.7 + - - +
85I GLU* 3.6 7.4 - - - +
87I LEU* 1.3 78.1 - - - +
89I SER* 1.3 57.6 + - - +
91I LEU* 3.4 8.6 + - + +
92I ALA* 3.1 26.0 + - - +
138I LEU* 3.8 38.0 + - + +
142I GLN* 4.9 10.3 - - - +
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Residues in contact with SER 89 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24I GLN* 3.1 10.6 + - - -
28I HIS* 4.7 0.4 - - - -
78I ASN* 2.6 52.6 + - - +
79I ILE 4.8 1.1 - - - -
80I GLY* 5.9 0.4 - - - -
85I GLU* 3.0 18.2 + - - -
86I MET* 3.5 7.6 - - - -
88I ARG* 1.3 75.4 - - - +
90I ASP* 1.4 64.4 + - - +
92I ALA* 3.3 7.3 + - - +
93I LEU* 3.1 18.7 + - - +
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Residues in contact with ASP 90 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24I GLN* 2.7 33.4 + - - +
25I TYR* 3.6 25.5 + - + -
28I HIS* 2.9 20.8 + - - -
44I GLU* 2.7 31.2 - - - +
86I MET 3.1 9.3 + - - +
87I LEU* 3.4 9.1 - - - +
89I SER* 1.4 71.6 - - - +
91I LEU* 1.3 64.9 + - - +
93I LEU* 3.1 8.3 + - - +
94I GLU* 2.9 25.3 + - - +
134I LEU* 4.1 11.2 - - + -
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Residues in contact with LEU 91 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87I LEU 3.0 12.0 + - - +
88I ARG* 3.6 14.8 - - + +
89I SER 3.3 0.2 - - - -
90I ASP* 1.3 75.3 - - - +
92I ALA* 1.3 62.3 + - - +
94I GLU* 3.2 1.9 + - - +
95I LEU* 3.0 42.7 + - + +
131I ILE* 3.9 28.3 - - + -
134I LEU* 3.9 21.4 - - + +
135I GLU* 4.2 22.4 - - + +
138I LEU* 3.8 23.8 - - + -
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Residues in contact with ALA 92 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88I ARG 3.1 13.6 + - - +
89I SER* 3.3 8.7 + - - +
91I LEU* 1.3 76.1 - - - +
93I LEU* 1.3 57.4 + - - +
95I LEU* 3.5 10.5 + - - +
96I ASP* 2.9 37.0 + - - +
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Residues in contact with LEU 93 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17I ASN* 5.3 8.0 - - + +
20I VAL* 3.7 26.5 - - + -
21I ALA* 3.8 33.7 - - + -
24I GLN* 3.9 25.6 - - + +
25I TYR* 5.9 4.0 - - + -
76I LYS 5.2 3.1 - - - +
89I SER 3.1 11.2 + - - +
90I ASP* 3.1 12.4 + - - +
92I ALA* 1.3 78.3 - - - +
94I GLU* 1.3 58.9 + - + +
96I ASP* 3.4 8.1 + - + +
97I GLY* 3.0 24.4 + - - -
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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
----------------------------------------------------------
21I ALA* 6.2 0.4 - - - -
25I TYR* 2.4 30.1 + - + +
51I GLU* 3.1 2.9 - - - +
90I ASP 2.9 19.3 + - - +
91I LEU* 3.6 4.7 - - - +
93I LEU* 1.3 75.4 - - + +
95I LEU* 1.3 60.4 + - - +
97I GLY* 3.1 2.9 + - - +
98I ALA* 2.9 30.7 + - - +
127I GLU* 3.1 19.1 - - - +
130I HIS* 2.9 18.6 + - + +
131I ILE* 3.6 20.3 - - + +
134I LEU* 4.0 9.9 - - + -
301I FE2 2.2 31.6 - - - -
400I UNK 4.0 2.4 + - - -
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Residues in contact with LEU 95 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1F MET* 4.5 14.4 - - + -
91I LEU* 3.0 37.5 + - + +
92I ALA* 3.7 8.3 - - - +
94I GLU* 1.3 77.3 - - - +
96I ASP* 1.3 62.8 + - - +
98I ALA* 3.4 4.9 + - + +
99I LYS* 3.2 29.6 + - - +
131I ILE* 3.8 34.1 - - + -
135I GLU* 5.3 2.9 - - - +
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Residues in contact with ASP 96 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17I ASN* 5.6 0.9 - - - +
92I ALA* 2.9 24.2 + - - +
93I LEU* 3.8 9.1 - - + +
94I GLU 3.3 0.4 - - - -
95I LEU* 1.3 72.7 - - - +
97I GLY* 1.3 63.9 + - - +
99I LYS* 3.4 27.5 + - - +
100I ASN* 3.2 31.0 + - - +
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Residues in contact with GLY 97 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I LEU* 4.6 0.2 - - - +
17I ASN* 3.8 25.4 + - - -
93I LEU 3.0 14.1 + - - -
94I GLU* 3.1 4.4 + - - -
96I ASP* 1.3 74.6 - - - +
98I ALA* 1.3 64.6 - - - +
100I ASN* 3.4 2.8 + - - +
101I LEU* 2.9 30.1 + - - +
127I GLU* 5.7 2.9 - - - -
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Residues in contact with ALA 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 16.1 + - - +
95I LEU* 3.8 6.5 - - + +
97I GLY* 1.3 77.2 - - - +
99I LYS* 1.3 56.7 + - - +
101I LEU* 3.1 10.2 + - - +
102I ARG* 2.8 57.1 + - - +
124I LEU* 4.0 13.0 - - + -
127I GLU* 5.1 4.0 - - + +
128I GLU* 5.3 0.4 - - - +
131I ILE* 4.2 17.0 - - + -
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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 LEU* 3.2 20.1 + - - +
96I ASP* 3.4 33.3 + - - +
97I GLY 3.2 0.2 - - - -
98I ALA* 1.3 78.5 - - - +
100I ASN* 1.3 67.8 + - - +
102I ARG* 3.2 9.4 + - - +
103I GLU* 3.2 20.9 + - - +
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Residues in contact with ASN 100 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I TYR* 4.9 3.8 - - + -
13I LYS* 3.5 34.1 - - - +
14I LEU* 3.7 18.5 - - + +
17I ASN* 2.9 24.6 + - - +
96I ASP* 3.2 14.5 + - - +
97I GLY 3.8 3.8 - - - +
99I LYS* 1.3 81.7 - - - +
101I LEU* 1.3 61.7 + - - +
103I GLU* 3.3 15.6 + - - +
104I ALA* 3.0 24.3 + - - +
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Residues in contact with LEU 101 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I LEU* 3.8 19.9 - - + +
18I GLU* 5.5 1.1 - - - +
58I TYR* 3.6 19.5 - - - +
97I GLY 2.9 17.0 + - - +
98I ALA* 3.1 9.6 + - - +
100I ASN* 1.3 73.9 - - - +
102I ARG* 1.3 66.2 + - - +
104I ALA* 3.2 3.0 + - - +
105I ILE* 2.9 33.8 + - + +
120I MET* 3.8 29.6 - - + +
123I ILE* 4.0 7.0 - - + -
124I LEU* 3.7 26.9 - - + +
127I GLU* 3.7 30.5 - - + +
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Residues in contact with ARG 102 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1F MET* 4.0 18.2 - - - +
111F VAL 5.4 0.7 - - - -
112F HIS* 3.1 55.8 + - + +
113F ASP* 4.6 10.3 + - - +
114F TYR* 3.6 10.8 - - - -
115F VAL* 4.7 1.2 - - - +
98I ALA* 2.8 44.7 + - - +
99I LYS* 3.2 9.8 + - - +
101I LEU* 1.3 74.8 - - - +
103I GLU* 1.3 61.8 + - - +
105I ILE* 3.5 0.8 + - - -
106I GLY 3.3 16.1 + - - -
124I LEU* 4.1 17.0 - - + +
128I GLU* 2.5 35.7 + - - -
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Residues in contact with GLU 103 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112F HIS* 5.2 4.2 + - - -
6I LYS* 5.4 0.5 + - - -
10I TYR* 2.6 32.6 + - - +
13I LYS* 5.8 2.4 - - - -
99I LYS* 3.2 12.0 + - - +
100I ASN* 3.5 20.4 + - - +
101I LEU 3.2 0.4 - - - -
102I ARG* 1.3 78.9 - - - +
104I ALA* 1.3 61.1 + - - +
106I GLY* 3.4 1.6 + - - -
107I TYR* 3.2 21.7 + - - +
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Residues in contact with ALA 104 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I TYR* 3.8 35.0 - - + -
14I LEU* 3.9 9.9 - - + -
100I ASN 3.0 16.1 + - - +
101I LEU 3.8 2.5 - - - +
103I GLU* 1.3 76.6 - - - +
105I ILE* 1.3 57.8 + - - +
107I TYR* 3.2 2.3 + - - +
108I ALA* 2.8 32.1 + - - +
120I MET* 3.7 23.4 - - + +
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Residues in contact with ILE 105 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114F TYR* 3.5 28.9 - - + -
101I LEU* 2.9 22.2 + - + +
104I ALA* 1.3 75.3 - - - +
106I GLY* 1.3 64.4 + - - +
108I ALA* 3.6 0.6 + - - +
109I ASP 3.1 17.7 + - - -
117I ARG* 3.3 37.5 + - + +
120I MET* 3.6 32.5 - - + +
121I ILE* 4.0 24.0 - - + +
124I LEU* 3.8 29.4 - - + -
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Residues in contact with GLY 106 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112F HIS* 4.6 6.7 - - - -
114F TYR* 3.4 18.5 + - - -
102I ARG 3.3 9.7 + - - -
103I GLU 3.9 3.6 - - - -
105I ILE* 1.3 78.1 - - - +
107I TYR* 1.3 61.4 + - - +
109I ASP* 3.5 5.5 + - - +
110I SER* 3.2 20.8 + - - -
117I ARG* 4.3 3.6 - - - -
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Residues in contact with TYR 107 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4I ASP* 2.9 36.8 + - - -
6I LYS* 3.4 32.2 - - + +
7I VAL* 3.7 14.6 - - + -
10I TYR* 3.7 31.9 - + + +
103I GLU 3.2 16.1 + - - +
104I ALA 3.2 2.4 + - - +
106I GLY* 1.3 74.8 - - - +
108I ALA* 1.3 68.1 + - - +
110I SER* 2.9 26.0 + - - -
111I VAL* 3.2 27.4 + - + +
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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
----------------------------------------------------------
7I VAL* 4.3 9.9 - - + -
104I ALA 2.8 21.0 + - - +
105I ILE 3.8 3.8 - - - +
107I TYR* 1.3 74.6 - - - +
109I ASP* 1.3 62.1 + - - +
111I VAL* 3.3 9.2 + - - +
112I HIS 3.1 4.0 + - - -
113I ASP* 2.9 48.2 + - + +
116I SER* 4.7 1.1 - - - -
117I ARG* 4.1 4.9 - - + +
120I MET* 3.7 20.9 - - + -
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Residues in contact with ASP 109 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109F ASP* 5.5 3.6 - - - +
105I ILE 3.1 6.0 + - - +
106I GLY* 3.5 8.7 - - - +
107I TYR 3.2 0.2 - - - -
108I ALA* 1.3 76.4 - - - +
110I SER* 1.3 64.7 + - - +
112I HIS* 3.1 14.7 + - - -
114I TYR* 3.3 21.0 + - - -
117I ARG* 3.1 35.3 + - - +
109K ASP* 5.4 3.0 - - - +
117K ARG* 2.8 34.0 + - - -
----------------------------------------------------------
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Residues in contact with SER 110 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106I GLY 3.2 11.3 + - - -
107I TYR* 2.9 26.9 + - - -
109I ASP* 1.3 82.9 - - - +
111I VAL* 1.3 58.6 + - - +
112I HIS* 3.3 13.5 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4I ASP* 3.7 17.9 - - + +
7I VAL* 3.8 27.1 - - + -
107I TYR* 3.2 44.5 + - + +
108I ALA 3.5 7.4 - - - +
110I SER* 1.3 76.2 - - - +
112I HIS* 1.3 71.9 + - - +
113I ASP* 3.3 5.1 + - + +
102K ARG* 5.5 0.7 - - - -
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il