Contacts of the helix formed by residues 81 - 113 (chain A) in PDB entry 2O98
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 ASN 81 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A GLU* 3.0 30.5 + - + +
79A ARG* 4.2 9.5 - - + +
80A GLY* 1.3 73.4 - - - +
82A GLU* 1.3 65.6 + - - +
83A GLU* 3.2 18.0 + - - +
84A HIS* 2.9 34.5 + - + +
85A VAL* 2.9 24.6 + - - +
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Residues in contact with GLU 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A GLY 3.4 7.2 + - - +
81A ASN* 1.3 72.8 - - - +
83A GLU* 1.3 61.2 + - + +
85A VAL* 3.3 8.9 + - + +
86A ASN* 3.0 45.4 + - - +
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Residues in contact with GLU 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A ASN* 3.2 13.0 + - - +
82A GLU* 1.3 74.8 - - + +
84A HIS* 1.3 72.5 + - + +
86A ASN* 3.4 8.4 + - - +
87A SER* 3.2 24.6 + - - -
4B ALA 4.8 13.9 + - - +
5B PRO* 4.6 25.8 - - + +
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Residues in contact with HIS 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A GLU* 3.1 30.2 + - + -
81A ASN* 2.9 30.7 + - - +
83A GLU* 1.3 83.5 - - + +
85A VAL* 1.3 63.1 + - - +
87A SER* 3.2 6.2 + - - -
88A ILE* 3.0 28.8 + - - +
13B TYR* 3.4 54.7 - + + +
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Residues in contact with VAL 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLU* 4.2 17.3 - - + +
76A GLU* 3.6 32.3 - - + +
77A GLU* 4.0 23.1 - - + +
81A ASN 2.9 23.1 + - - +
82A GLU* 3.6 10.3 - - + +
83A GLU 3.2 0.2 - - - -
84A HIS* 1.3 76.3 - - - +
86A ASN* 1.3 66.4 + - - +
88A ILE* 3.4 8.9 + - - +
89A ARG* 3.1 24.2 + - + +
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Residues in contact with ASN 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A GLU* 3.0 35.1 + - - +
83A GLU* 4.0 6.2 - - - +
84A HIS 3.3 0.4 - - - -
85A VAL* 1.3 77.1 - - - +
87A SER* 1.3 59.2 + - - +
89A ARG* 3.2 9.4 + - - +
90A GLU* 2.8 41.5 + - - +
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Residues in contact with SER 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A GLU 3.2 14.5 + - - -
84A HIS* 3.2 9.0 + - - -
86A ASN* 1.3 74.6 - - - +
88A ILE* 1.3 63.4 + - - +
90A GLU* 3.4 8.1 + - - +
91A TYR* 3.0 23.9 + - - +
10B GLU* 2.6 28.0 + - - -
13B TYR* 4.1 22.3 - - - +
14B MET* 3.7 18.0 - - - +
17B LEU* 4.5 1.8 - - - -
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Residues in contact with ILE 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A ILE* 3.4 38.0 - - + +
72A ILE* 3.9 13.2 - - + +
73A GLU* 3.5 34.3 - - + -
76A GLU* 4.3 6.3 - - + -
84A HIS 3.0 26.4 + - - +
85A VAL* 3.7 5.6 - - - +
87A SER* 1.3 75.3 - - - +
89A ARG* 1.3 53.0 + - - +
91A TYR* 3.5 1.6 - - - +
92A ARG* 2.7 31.9 + - - +
13B TYR* 3.6 18.2 - - + +
17B LEU* 3.6 28.3 - - + -
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Residues in contact with ARG 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLU* 3.9 6.0 + - - +
85A VAL* 3.1 20.5 + - + +
86A ASN* 3.4 10.8 - - - +
87A SER 3.1 0.2 - - - -
88A ILE* 1.3 73.5 - - - +
90A GLU* 1.3 65.7 + - - +
91A TYR 3.0 2.0 + - - -
92A ARG* 2.6 56.9 + - - +
93A SER* 3.1 28.1 + - - -
96A GLU* 4.8 7.9 + - - -
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Residues in contact with GLU 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A ASN* 2.8 27.8 + - - +
87A SER* 3.5 13.9 - - - +
89A ARG* 1.3 71.9 - - - +
91A TYR* 1.3 60.1 + - - +
93A SER* 3.4 17.9 - - - -
94A LYS* 3.6 7.1 + - - +
10B GLU* 4.3 11.4 - - - +
14B MET* 4.5 10.0 - - + +
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Residues in contact with TYR 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A ILE* 4.0 28.9 - - + -
87A SER 3.0 17.3 + - - +
88A ILE* 3.5 6.7 - - - +
89A ARG 3.0 0.2 - - - -
90A GLU* 1.3 75.9 - - - +
92A ARG* 1.3 65.2 + - - +
93A SER 3.2 1.3 - - - -
94A LYS* 3.3 14.5 + - + +
95A ILE* 3.2 35.6 + - + +
14B MET* 4.2 18.6 - - + -
17B LEU* 4.3 16.8 - - + -
18B ALA* 3.4 28.9 - - + +
23B ARG* 3.6 11.7 - - - -
26B GLU* 2.6 30.2 + - - +
30B PHE* 3.8 22.0 - + - -
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Residues in contact with ARG 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A TRP* 3.3 37.4 - - + +
69A ILE* 3.8 16.8 - - + +
70A SER* 3.4 19.2 + - - -
73A GLU* 2.5 43.6 + - - -
88A ILE 2.7 20.4 + - - +
89A ARG* 2.6 60.1 + - - +
91A TYR* 1.3 72.7 - - - +
93A SER* 1.3 51.6 + - - +
95A ILE* 3.1 12.1 + - - +
96A GLU* 2.8 44.6 + - - +
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Residues in contact with SER 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A ARG* 3.1 17.7 + - - -
90A GLU* 3.4 15.3 - - - -
92A ARG* 1.3 73.4 - - - +
94A LYS* 1.3 67.1 + - - +
96A GLU* 2.8 28.0 + - - +
97A ASN* 2.9 20.2 + - - +
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Residues in contact with LYS 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A GLU 3.6 7.5 + - - +
91A TYR* 3.3 18.1 + - + +
93A SER* 1.3 77.1 - - - +
95A ILE* 1.3 66.0 + - + +
97A ASN* 3.2 20.5 + - - +
98A GLU* 3.3 29.0 + - + +
23B ARG* 4.7 3.1 - - - +
26B GLU* 2.8 31.4 + - - +
29B GLU* 4.5 10.9 + - - -
30B PHE* 6.0 3.7 - - + -
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Residues in contact with ILE 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ARG* 3.7 29.8 - - + +
65A SER* 4.1 18.6 - - - +
66A TRP* 4.1 17.9 - - + +
69A ILE* 4.7 6.5 - - + -
91A TYR* 3.2 38.7 + - + +
92A ARG* 3.1 13.2 + - - +
94A LYS* 1.3 78.6 - - + +
96A GLU* 1.3 62.6 + - - +
98A GLU* 3.1 6.3 + - - +
99A LEU* 3.1 24.7 + - + +
23B ARG* 3.6 35.9 - - - +
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Residues in contact with GLU 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A TRP* 3.0 31.5 + - + +
89A ARG* 4.8 5.4 + - - -
92A ARG* 2.8 42.3 + - - +
93A SER* 2.8 21.1 + - - +
95A ILE* 1.3 71.7 - - - +
97A ASN* 1.3 57.8 + - - +
99A LEU* 3.4 9.3 + - - +
100A SER* 2.9 32.4 + - - -
141A PHE* 3.6 38.6 - - + +
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Residues in contact with ASN 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A SER* 2.9 19.9 + - - +
94A LYS* 3.6 14.8 - - - +
96A GLU* 1.3 76.2 - - - +
98A GLU* 1.3 64.0 + - + +
100A SER* 3.3 8.6 + - - -
101A LYS* 3.0 23.8 + - - +
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Residues in contact with GLU 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ARG* 2.8 33.3 + - + +
94A LYS* 3.3 24.9 + - + +
95A ILE 3.1 8.3 + - - +
97A ASN* 1.3 74.0 - - + +
99A LEU* 1.3 67.2 + - - +
101A LYS* 3.1 7.3 + - - +
102A ILE* 2.9 33.1 + - + +
23B ARG* 2.5 42.1 + - - -
26B GLU* 4.6 0.2 - - - +
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Residues in contact with LEU 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ILE* 3.3 27.1 - - + -
62A ARG* 3.3 32.7 - - + +
63A ARG* 3.9 14.1 - - + +
66A TRP* 4.2 23.1 - - + -
95A ILE* 3.1 21.4 + - + +
96A GLU* 3.7 7.6 - - - +
98A GLU* 1.3 75.6 - - - +
100A SER* 1.3 63.3 + - - +
102A ILE* 3.4 5.2 + - - +
103A CYS* 3.0 30.6 + - - +
137A TYR* 5.8 1.1 - - + +
141A PHE* 3.6 36.1 - - + -
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Residues in contact with SER 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A GLU 2.9 17.0 + - - -
97A ASN* 3.4 12.5 + - - -
99A LEU* 1.3 79.1 - - - +
101A LYS* 1.3 52.3 + - - +
103A CYS* 3.3 1.6 + - - +
104A ASP* 2.8 45.1 + - - +
138A LEU* 4.0 10.1 - - - -
141A PHE* 3.9 6.0 - - - -
142A LYS* 3.3 25.8 + - - -
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Residues in contact with LYS 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A ASN 3.0 13.4 + - - +
98A GLU* 3.1 8.5 + - - +
100A SER* 1.3 77.5 - - - +
102A ILE* 1.3 65.0 + - + +
104A ASP* 3.4 7.6 + - - +
105A GLY* 3.1 18.4 + - - -
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Residues in contact with ILE 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A TYR* 4.5 19.2 - - + -
58A VAL* 4.0 26.0 - - + +
59A ILE* 3.7 25.8 - - + -
62A ARG* 3.6 39.7 - - + +
98A GLU* 2.9 23.7 + - + +
99A LEU* 3.9 4.5 - - - +
101A LYS* 1.3 77.0 - - + +
103A CYS* 1.3 69.2 + - - +
105A GLY* 2.8 13.9 + - - -
106A ILE* 3.2 11.3 + - - +
134A TYR* 5.2 1.6 - - + -
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Residues in contact with CYS 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ILE* 4.1 7.4 - - - -
99A LEU* 3.0 21.4 + - - +
100A SER 3.5 3.6 - - - +
102A ILE* 1.3 77.6 - - - +
104A ASP* 1.3 63.6 + - - +
105A GLY 3.1 0.5 + - - -
106A ILE* 3.4 8.4 + - - +
107A LEU* 3.0 28.9 + - + +
134A TYR* 3.3 41.3 - - + +
137A TYR* 4.0 15.3 - - - -
138A LEU* 3.9 24.5 - - + -
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Residues in contact with ASP 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A SER* 2.8 34.2 + - - +
101A LYS* 3.9 6.5 - - - +
103A CYS* 1.3 73.5 - - - +
105A GLY* 1.3 63.5 + - - +
107A LEU* 3.9 8.4 - - - +
108A LYS* 3.1 25.8 + - - +
138A LEU* 4.6 10.7 - - - +
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Residues in contact with GLY 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLU* 5.4 3.4 - - - +
55A TYR* 4.9 7.1 + - - -
101A LYS 3.1 9.8 + - - -
102A ILE 2.8 11.1 + - - -
104A ASP* 1.3 79.3 - - - +
106A ILE* 1.3 59.3 + - - -
108A LYS* 3.4 10.5 + - - +
109A LEU* 3.4 12.3 + - - +
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Residues in contact with ILE 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A LEU* 4.8 1.6 - - + -
55A TYR* 3.7 41.6 - - + -
102A ILE 3.2 9.6 + - - +
103A CYS 3.5 9.6 - - - +
105A GLY* 1.3 71.8 - - - +
107A LEU* 1.3 67.6 + - - +
108A LYS 3.1 1.1 - - - -
109A LEU* 2.9 17.7 + - + +
110A LEU* 2.9 43.8 + - + +
114A LEU* 4.7 3.4 - - + -
130A MET* 3.6 26.7 - - + -
134A TYR* 3.5 36.8 - - + -
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Residues in contact with LEU 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A CYS 3.0 25.5 + - - +
104A ASP* 3.9 7.9 - - - +
106A ILE* 1.3 76.1 - - - +
108A LYS* 1.3 60.9 + - - +
110A LEU* 3.5 6.6 + - + +
111A ASP* 3.1 34.5 + - - +
131A LYS* 3.8 28.7 - - + +
134A TYR* 4.1 18.6 - - + -
135A HIS* 3.5 50.5 - - + +
138A LEU* 4.6 13.9 - - + -
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Residues in contact with LYS 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A ASP 3.1 18.4 + - - +
105A GLY* 3.6 7.0 - - - +
106A ILE 3.1 0.4 - - - -
107A LEU* 1.3 76.4 - - - +
109A LEU* 1.3 58.4 + - - +
111A ASP* 3.5 3.7 + - - +
112A ALA* 3.0 39.7 + - + +
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Residues in contact with LEU 109 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLU* 4.5 15.9 - - + +
35A SER* 4.0 22.7 - - - +
36A ASN* 5.9 2.7 - - - +
51A LEU* 4.8 8.1 - - + -
55A TYR* 4.4 17.3 - - - +
105A GLY 3.4 8.3 + - - +
106A ILE* 2.9 20.3 + - + +
108A LYS* 1.3 77.5 - - - +
110A LEU* 1.3 59.4 + - - +
112A ALA* 4.9 1.3 - - + -
113A LYS* 2.8 48.8 + - + +
114A LEU* 3.2 22.0 + - + -
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Residues in contact with LEU 110 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A ILE* 2.9 38.5 + - + +
107A LEU* 3.6 11.0 - - + +
109A LEU* 1.3 78.4 - - - +
111A ASP* 1.3 63.4 + - - +
114A LEU* 3.3 35.4 - - + -
115A ILE* 2.9 41.1 + - + +
127A TYR* 4.0 24.7 - - + +
130A MET* 3.7 29.6 - - + +
131A LYS* 3.9 16.2 - - + +
134A TYR* 5.0 0.7 - - + -
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Residues in contact with ASP 111 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A LEU* 3.1 22.9 + - - +
108A LYS* 4.3 3.9 - - - +
109A LEU 3.3 0.2 - - - -
110A LEU* 1.3 79.7 - - - +
112A ALA* 1.3 61.4 + - - +
115A ILE* 4.0 5.4 - - - +
116A PRO* 3.6 16.8 - - - +
131A LYS* 3.2 43.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 112 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A SER* 5.2 2.3 - - - -
108A LYS* 3.0 27.5 + - + +
109A LEU* 4.9 0.7 - - - -
111A ASP* 1.3 80.0 - - - +
113A LYS* 1.3 77.7 + - + +
116A PRO* 4.3 7.3 - - - +
----------------------------------------------------------
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Residues in contact with LYS 113 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A SER* 4.9 3.6 - - - +
39A GLY* 3.8 35.6 - - - +
40A SER* 4.4 16.0 - - - +
109A LEU* 2.8 34.0 + - + +
111A ASP 3.6 0.2 - - - -
112A ALA* 1.3 91.1 - - + +
114A LEU* 1.3 76.5 + - + +
115A ILE 3.5 1.6 - - - -
116A PRO* 3.5 3.3 - - - +
117A SER* 3.2 25.3 + - - -
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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