Contacts of the helix formed by residues 95 - 121 (chain A) in PDB entry 2FBI
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 THR 95 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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76A GLY* 2.4 35.5 + - - +
77A ILE 2.8 11.9 + - - -
78A VAL 3.5 27.4 - - - +
79A ARG* 3.7 26.9 - - + +
93A ASN* 4.8 0.7 - - - +
94A LEU* 1.3 76.0 - - - +
96A GLU* 1.3 60.0 + - - +
97A LYS* 3.4 3.9 + - - -
98A GLY 2.9 8.3 + - - -
99A GLN* 2.8 29.3 + - - +
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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
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95A THR* 1.3 73.8 - - - +
97A LYS* 1.3 63.0 + - - +
99A GLN* 3.3 8.5 + - - +
100A GLN* 3.1 23.9 + - - +
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Residues in contact with LYS 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75A ASP* 2.9 25.0 + - - +
76A GLY* 3.7 21.7 - - - +
77A ILE* 4.1 12.1 - - + -
95A THR* 3.1 2.3 + - - +
96A GLU* 1.3 81.1 - - - +
98A GLY* 1.3 57.4 + - - +
100A GLN* 3.4 5.0 + - - +
101A CYS* 2.9 28.0 + - + +
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Residues in contact with GLY 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A ILE* 4.7 1.6 - - - +
76A GLY 4.2 0.6 + - - -
77A ILE* 3.6 33.7 - - - -
94A LEU* 4.3 10.9 - - - +
95A THR* 2.9 15.2 + - - -
97A LYS* 1.3 76.3 - - - +
99A GLN* 1.3 56.7 + - - +
101A CYS* 3.2 6.3 - - - +
102A PHE* 2.9 27.4 + - - +
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Residues in contact with GLN 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43A LEU 5.0 3.0 + - - -
44A ARG* 2.9 45.1 + - - +
94A LEU* 3.7 30.1 + - + +
95A THR 2.8 21.0 + - - +
96A GLU* 3.7 8.1 - - - +
98A GLY* 1.3 75.2 - - - +
100A GLN* 1.3 56.2 + - - +
102A PHE* 3.3 5.4 + - - +
103A VAL* 3.0 31.8 + - - +
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Residues in contact with GLN 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96A GLU 3.1 16.6 + - - +
97A LYS* 3.8 5.2 - - - +
99A GLN* 1.3 73.8 - - - +
101A CYS* 1.3 61.4 + - - +
103A VAL* 3.3 24.3 + - - +
104A SER* 3.0 34.6 + - - +
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Residues in contact with CYS 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A HIS* 6.3 0.2 - - - -
32A LEU* 4.3 23.8 - - - -
37A TRP* 5.4 1.6 - - - -
40A ILE* 4.7 9.2 - - - -
77A ILE* 4.4 15.7 - - + -
97A LYS* 2.9 15.0 + - + +
98A GLY* 3.2 15.3 - - - +
100A GLN* 1.3 73.5 - - - +
102A PHE* 1.3 68.2 + - - +
103A VAL 3.3 0.2 + - - -
104A SER* 3.3 7.3 + - - -
105A MET* 3.2 28.6 + - - +
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Residues in contact with PHE 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A TRP* 3.5 30.7 - + - -
40A ILE* 4.1 13.6 - - + +
41A ARG* 3.8 37.2 - - - -
44A ARG* 3.3 61.0 - - + -
94A LEU* 5.2 0.7 - - + -
98A GLY 2.9 16.1 + - - +
99A GLN* 3.3 10.7 + - - +
101A CYS* 1.3 75.5 - - - +
103A VAL* 1.3 68.1 + - - +
105A MET* 3.2 3.1 + - - +
106A SER* 3.1 34.9 + - - -
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Residues in contact with VAL 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44A ARG* 3.9 24.9 - - - +
99A GLN 3.0 20.9 + - - +
100A GLN* 3.7 28.5 - - - +
101A CYS 3.2 0.6 - - - -
102A PHE* 1.3 77.5 - - - +
104A SER* 1.3 63.5 + - - +
106A SER* 2.7 27.6 + - - +
107A GLY 4.1 1.7 + - - -
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Residues in contact with SER 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A HIS* 4.1 18.5 + - - -
100A GLN* 3.0 24.2 + - - -
101A CYS* 3.5 10.6 + - - -
103A VAL* 1.3 76.1 - - - +
105A MET* 1.3 62.2 + - - +
106A SER 3.6 0.2 + - - -
107A GLY* 4.3 4.2 + - - -
108A ASP* 4.7 6.2 + - - +
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Residues in contact with MET 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A SER* 3.9 15.5 - - - +
27A LEU* 4.0 11.2 - - + -
30A HIS* 3.3 31.4 - - + +
32A LEU* 3.4 31.9 - - + -
37A TRP* 3.7 24.0 - - + -
101A CYS* 3.2 21.1 + - - +
102A PHE 3.2 0.4 + - - +
104A SER* 1.3 77.6 - - - +
106A SER* 1.3 59.5 + - - +
107A GLY 3.3 0.4 - - - -
108A ASP* 3.3 7.7 + - + +
109A MET* 3.0 65.6 + - + +
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Residues in contact with SER 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A TRP* 5.5 2.2 - - - -
102A PHE* 3.1 32.3 + - - -
103A VAL* 2.7 23.5 + - - +
105A MET* 1.3 77.4 - - - +
107A GLY* 1.3 56.9 + - - +
109A MET* 3.8 6.8 - - - +
110A GLU* 2.9 30.8 + - - +
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Residues in contact with GLY 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A VAL 4.1 2.6 + - - -
104A SER 4.3 3.3 + - - -
105A MET 3.3 0.6 + - - -
106A SER* 1.3 77.1 + - - +
108A ASP* 1.3 66.3 + - - +
110A GLU* 3.3 7.9 + - - +
111A LYS* 3.1 34.7 + - - +
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Residues in contact with ASP 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A SER* 4.2 21.7 - - - +
30A HIS* 3.1 27.8 + - - +
104A SER 4.7 5.3 + - - +
105A MET* 3.3 9.4 + - + +
107A GLY* 1.3 74.6 - - - +
109A MET* 1.3 61.9 + - + +
111A LYS* 3.2 18.3 + - - +
112A ASN* 3.0 27.9 + - - +
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Residues in contact with MET 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A PHE* 3.7 33.8 - - + +
26A SER* 3.2 27.6 - - - +
27A LEU* 4.2 11.7 - - - -
37A TRP* 4.0 26.9 - - + +
105A MET* 3.0 37.5 + - + +
106A SER* 4.0 6.3 - - - +
107A GLY 3.3 0.4 - - - -
108A ASP* 1.3 75.5 - - - +
110A GLU* 1.3 56.6 + - - +
112A ASN* 3.1 33.5 + - - +
113A TYR* 3.1 40.2 + - + -
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Residues in contact with GLU 110 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A SER 2.9 18.4 + - - +
107A GLY* 3.6 7.2 - - - +
108A ASP 3.3 0.2 - - - -
109A MET* 1.3 73.2 - - - +
111A LYS* 1.3 58.8 + - + +
113A TYR* 3.0 13.8 + - - +
114A GLN* 2.8 64.8 + - - +
117A GLN* 5.5 1.4 - - - +
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Residues in contact with LYS 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107A GLY* 3.1 24.0 + - - +
108A ASP* 3.5 16.5 + - - +
110A GLU* 1.3 76.5 - - + +
112A ASN* 1.3 59.0 + - - +
114A GLN* 3.3 22.2 + - - +
115A ARG* 3.0 52.1 + - - +
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Residues in contact with ASN 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A PHE* 3.0 28.7 + - + +
23A PHE* 3.5 19.5 - - + -
26A SER* 2.9 27.8 + - - -
108A ASP* 3.0 19.3 + - - +
109A MET* 3.1 13.6 - - - +
111A LYS* 1.3 76.5 - - - +
113A TYR* 1.3 58.2 + - - +
115A ARG* 3.1 30.7 + - - +
116A ILE* 3.1 29.8 + - - +
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Residues in contact with TYR 113 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A PHE* 3.5 32.4 - + - -
41A ARG* 4.4 22.3 + - - -
109A MET* 3.1 27.7 + - + -
110A GLU* 3.0 18.4 + - - +
112A ASN* 1.3 75.0 - - - +
114A GLN* 1.3 58.5 + - - +
116A ILE* 3.2 16.2 + - + +
117A GLN* 2.9 33.3 + - - +
125A LEU* 5.0 18.5 - - + +
129A LEU* 6.6 0.4 - - + -
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Residues in contact with GLN 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A GLU* 2.8 44.9 + - - +
111A LYS* 3.5 30.0 + - - +
113A TYR* 1.3 73.2 - - - +
115A ARG* 1.3 61.2 + - + +
117A GLN* 3.3 12.9 + - - +
118A GLU* 3.0 41.2 + - + +
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Residues in contact with ARG 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A PHE* 4.0 22.7 - - + -
111A LYS* 3.0 39.3 + - - +
112A ASN* 3.1 33.6 + - - +
114A GLN* 1.3 75.0 - - + +
116A ILE* 1.3 62.0 + - - +
118A GLU* 3.6 12.7 + - - +
119A ARG* 3.1 27.4 + - - +
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Residues in contact with ILE 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A ALA* 3.9 26.0 - - + +
22A PHE* 3.8 23.8 - - + -
23A PHE* 3.6 38.8 - - + -
112A ASN 3.1 11.1 + - - +
113A TYR* 3.2 15.9 + - + +
115A ARG* 1.3 72.4 - - - +
117A GLN* 1.3 57.8 + - - +
119A ARG* 3.7 3.3 - - - +
120A PHE* 2.7 52.7 + - + +
125A LEU* 4.5 21.1 - - + -
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Residues in contact with GLN 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A GLU* 5.5 1.6 - - - +
113A TYR* 2.9 19.0 + - - +
114A GLN* 3.3 15.0 + - - +
116A ILE* 1.3 77.8 - - - +
118A GLU* 1.3 55.5 + - + +
121A GLY* 2.6 37.6 + - - +
122A GLU* 3.6 42.2 + - - +
125A LEU* 4.1 23.0 - - + +
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Residues in contact with GLU 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A GLN* 3.0 27.8 + - + +
115A ARG* 3.9 11.9 - - - +
117A GLN* 1.3 78.9 - - + +
119A ARG* 1.3 60.1 + - + +
120A PHE 4.6 0.2 - - - -
121A GLY* 4.1 3.3 + - - -
122A GLU* 4.8 6.1 - - - +
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Residues in contact with ARG 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A PHE* 3.8 31.1 - - - -
115A ARG 3.1 14.8 + - - +
116A ILE* 4.1 2.7 - - - +
118A GLU* 1.3 79.2 - - + +
120A PHE* 1.3 59.0 + - - +
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Residues in contact with PHE 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A ILE* 2.7 31.5 + - + +
118A GLU 4.6 0.2 - - - -
119A ARG* 1.3 76.9 - - - +
121A GLY* 1.3 56.1 + - - +
124A LYS* 3.3 57.4 - - + +
125A LEU* 3.6 28.0 - - + -
128A LEU* 4.3 24.0 - - + -
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Residues in contact with GLY 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117A GLN 2.6 19.8 + - - -
118A GLU 4.1 2.8 + - - -
119A ARG 3.8 0.6 - - - -
120A PHE* 1.3 75.2 - - - +
122A GLU* 1.3 61.7 + - - -
123A GLU 3.4 2.7 - - - -
124A LYS* 3.4 7.1 + - - -
125A LEU* 2.9 35.9 + - - +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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