Contacts of the helix formed by residues 91 - 116 (chain D) in PDB entry 2IUO
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 91 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A LYS* 3.0 36.2 + - - +
89D PRO* 3.5 0.8 - - - +
90D THR* 1.3 79.6 + - - +
92D PRO* 1.3 65.1 - - - +
93D THR* 3.1 23.8 + - - -
94D MET* 3.2 12.1 + - + +
95D TYR* 2.7 33.8 + - - +
79J PRO 3.5 1.2 - - - +
80J LEU* 3.8 20.6 - - + +
81J ARG* 3.0 32.0 + - - +
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Residues in contact with PRO 92 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A ILE* 3.8 14.4 - - + -
90D THR 3.4 6.0 - - - +
91D ASP* 1.3 90.3 - - - +
93D THR* 1.3 61.8 + - - +
95D TYR* 4.1 0.7 - - + -
96D ARG* 3.1 34.9 + - - +
99I GLU* 3.4 45.1 - - + +
103I VAL* 4.1 14.4 - - + -
81J ARG* 3.6 23.1 - - + +
124J ILE* 4.2 9.9 - - + -
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Residues in contact with THR 93 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A LEU 5.0 0.2 - - - +
109A LYS* 4.0 23.2 + - - +
112A VAL* 4.1 24.7 - - + -
113A HIS* 3.4 17.1 + - + -
119A GLY 2.7 27.3 + - - +
120A ILE* 3.9 11.4 - - - +
121A ILE 4.9 2.6 + - - +
91D ASP* 3.1 13.9 + - - -
92D PRO* 1.3 81.3 - - - +
94D MET* 1.3 61.0 + - - +
96D ARG* 3.8 6.4 + - - +
97D PHE* 3.4 21.1 - - + -
81J ARG* 5.0 4.0 + - - -
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Residues in contact with MET 94 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU* 5.2 1.0 - - - +
105A GLY* 3.7 35.2 - - - +
106A THR* 3.9 21.3 - - + +
109A LYS* 4.0 11.7 - - + +
83D CYS* 4.2 10.5 - - - +
84D ILE* 4.2 20.0 - - + -
89D PRO* 3.8 20.2 - - + +
91D ASP* 3.2 16.3 + - + +
93D THR* 1.3 73.3 - - - +
95D TYR* 1.3 67.5 + - - +
97D PHE* 3.1 22.4 + - - +
98D TYR 3.6 6.1 + - - -
80J LEU* 3.7 27.8 - - - -
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Residues in contact with TYR 95 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88D ILE* 3.9 11.2 - - + -
89D PRO* 3.4 28.9 - - - +
90D THR 4.9 0.4 - - - +
91D ASP 2.7 21.6 + - - +
92D PRO* 3.3 9.8 + - + +
94D MET* 1.3 73.6 - - - +
96D ARG* 1.3 67.3 + - - +
98D TYR* 2.8 41.4 + + + +
99D GLU* 2.8 53.5 + - + +
102D GLN* 4.9 2.4 - - - +
88I ILE* 5.6 0.7 - - + +
89I PRO 4.2 5.4 + - - -
90I THR* 4.6 7.4 + - - -
95I TYR* 3.5 61.9 - + - +
99I GLU* 4.5 1.8 - - - +
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Residues in contact with ARG 96 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A ILE* 3.4 17.1 - - + +
121A ILE 3.3 27.1 - - - +
123A ALA* 3.9 10.1 - - + +
1157A BR 3.3 15.4 - - - +
1158A CL 3.6 12.3 - - - -
92D PRO* 3.1 34.3 + - - +
93D THR 4.1 5.2 - - - +
94D MET 3.2 0.6 + - - -
95D TYR* 1.3 87.4 - - - +
97D PHE* 1.3 55.8 + - + +
99D GLU* 3.3 7.4 + - - +
100D MET* 3.0 35.7 + - + +
95I TYR* 5.1 0.2 - - - -
96I ARG* 3.3 23.6 - - - +
99I GLU* 2.8 43.0 + - - -
124J ILE* 4.2 3.0 - - - +
1157J BR 3.2 25.7 - - - +
1158J CL 3.2 1.4 - - - +
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Residues in contact with PHE 97 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU* 3.6 25.3 - - + +
105A GLY* 5.7 1.3 - - - -
108A LEU* 4.0 42.2 - - + -
109A LYS 5.5 0.2 - - - -
112A VAL* 4.8 11.0 - - + -
121A ILE* 4.4 17.3 - - + -
146A LEU* 4.2 12.3 - - + -
93D THR* 3.4 24.0 - - + -
94D MET* 3.1 13.2 + - - +
96D ARG* 1.3 73.3 - - - +
98D TYR* 1.3 63.4 + - - +
100D MET* 3.4 40.8 + - + +
101D LEU* 3.4 13.9 + - - +
144D ILE* 3.7 31.9 - - + -
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Residues in contact with TYR 98 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A ILE* 4.5 7.0 - - + -
87A ARG* 2.8 40.3 + - - +
98A TYR* 4.4 21.5 - + - -
101A LEU* 3.5 14.0 - - + +
88D ILE* 3.4 29.1 - - + +
89D PRO* 4.1 26.7 - - + -
94D MET 3.6 2.0 + - - -
95D TYR* 2.8 39.1 + + + +
97D PHE* 1.3 73.9 - - - +
99D GLU* 1.3 66.1 + - - +
101D LEU* 3.0 8.8 + - + +
102D GLN* 3.0 52.4 + - + -
90I THR* 6.4 0.2 - - + -
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Residues in contact with GLU 99 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A ALA* 3.5 16.6 - - + +
124A ILE* 4.4 3.8 - - - +
95D TYR* 2.8 35.0 + - + +
96D ARG* 3.3 10.1 + - - +
98D TYR* 1.3 79.4 - - - +
100D MET* 1.3 56.3 + - - +
102D GLN* 3.0 10.7 + - + -
103D VAL* 2.8 35.1 + - + +
90I THR 5.0 2.3 - - - +
92I PRO* 3.4 35.2 - - + +
95I TYR* 4.5 1.7 - - - +
96I ARG* 2.8 45.3 + - - -
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Residues in contact with MET 100 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ILE* 4.2 13.0 - - + +
122A GLY 3.7 18.8 - - - +
123A ALA* 4.2 8.5 - - + +
126A PHE* 3.5 47.6 - - + -
128A LEU* 5.5 2.5 - - + -
146A LEU* 4.1 15.3 - - + -
96D ARG* 3.0 25.2 + - + +
97D PHE* 3.4 45.3 - - + +
98D TYR 3.2 0.2 - - - -
99D GLU* 1.3 73.2 - - - +
101D LEU* 1.3 62.7 + - + +
103D VAL* 4.9 1.8 - - - -
104D TYR* 2.8 41.9 + - + +
108D LEU* 5.3 0.8 - - - +
144D ILE* 5.7 0.2 - - + -
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Residues in contact with LEU 101 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A CYS* 3.4 5.2 - - - -
84A ILE* 4.0 14.7 - - + +
89A PRO* 6.0 0.9 - - + -
94A MET 5.4 0.7 - - - +
97A PHE* 3.4 31.9 - - + +
98A TYR* 3.4 36.3 - - + +
101A LEU* 3.5 25.8 - - + -
97D PHE 3.4 11.4 + - - +
98D TYR* 3.0 10.0 + - + +
100D MET* 1.3 79.1 - - + +
102D GLN* 1.3 62.4 + - - +
105D GLY* 2.8 32.5 + - - +
108D LEU* 4.4 12.1 - - + -
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Residues in contact with GLN 102 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A GLN* 3.8 0.9 - - - +
82A GLY* 3.1 31.3 - - - -
83A CYS* 2.9 39.2 + - - +
84A ILE* 3.2 31.7 + - + +
87A ARG* 4.4 4.9 + - - +
95D TYR* 4.9 2.5 - - - +
98D TYR* 3.0 51.6 + - + +
99D GLU* 3.0 11.9 + - + +
101D LEU* 1.3 75.5 - - - +
103D VAL* 1.3 61.6 + - + +
90I THR* 3.8 32.8 - - - +
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Residues in contact with VAL 103 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A GLN* 3.1 47.3 - - + +
51A GLN* 3.8 16.6 - - - +
81A ARG* 4.3 13.7 - - + -
83A CYS* 4.7 1.4 - - - -
123A ALA* 5.8 5.2 - - + +
99D GLU* 2.8 33.8 + - + +
100D MET* 4.8 0.9 - - - -
102D GLN* 1.3 82.0 - - + +
104D TYR* 1.3 88.2 - - + +
105D GLY 3.8 0.7 - - - -
106D THR* 5.1 0.5 + - - -
107D THR* 4.7 2.4 + - - -
92I PRO* 4.1 16.8 - - + -
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Residues in contact with TYR 104 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ALA* 4.1 9.2 - - + -
42A PHE* 4.4 0.3 - - - -
45A ALA* 3.8 29.2 - - + -
51A GLN* 3.1 22.5 + - + +
123A ALA 5.4 3.4 - - - -
126A PHE* 3.9 28.2 + + - -
128A LEU* 3.6 34.5 - - + -
100D MET* 2.8 23.0 + - - +
103D VAL* 1.3 90.9 - - + +
105D GLY* 1.3 57.6 + - - +
106D THR 3.3 2.7 - - - -
107D THR* 3.1 16.0 + - + -
108D LEU* 2.8 33.9 + - + +
156J PHE* 3.3 32.9 - + - -
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Residues in contact with GLY 105 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83A CYS* 3.7 4.1 - - - -
84A ILE* 6.2 0.2 - - - -
94A MET* 3.7 25.8 - - - +
97A PHE* 6.2 1.1 - - - -
100D MET 3.9 0.4 + - - -
101D LEU* 2.8 32.2 + - - -
104D TYR* 1.3 71.8 - - - +
106D THR* 1.3 60.8 + - - +
108D LEU* 3.4 12.1 + - - +
109D LYS 3.1 17.7 + - - -
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Residues in contact with THR 106 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU* 3.6 20.5 + - - +
50A GLN* 4.7 4.0 - - - +
83A CYS* 3.5 33.0 - - + +
94A MET* 3.7 25.4 - - + -
6B ILE* 3.9 42.3 - - + +
80B LEU* 5.2 0.2 - - + -
103D VAL 5.1 0.5 + - - -
105D GLY* 1.3 76.4 - - - +
107D THR* 1.3 60.3 + - - +
109D LYS* 3.4 6.9 + - - +
110D ALA* 2.9 29.5 + - - +
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Residues in contact with THR 107 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ALA* 3.5 26.9 - - + +
44A THR* 3.8 18.3 - - + -
45A ALA* 3.1 28.4 + - - +
48A LEU* 3.9 10.0 - - - +
50A GLN* 5.5 0.5 - - - +
128A LEU* 5.6 2.5 - - + -
103D VAL 4.7 1.6 + - - -
104D TYR* 3.1 21.6 + - + -
106D THR* 1.3 77.3 + - - +
108D LEU* 1.3 66.4 + - - +
110D ALA* 3.3 1.0 + - - -
111D LEU* 2.9 38.1 + - + +
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Residues in contact with LEU 108 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A PHE* 4.1 43.5 - - + -
128A LEU* 4.1 30.5 - - + -
130A VAL* 3.8 27.1 - - + -
144A ILE* 4.2 14.6 - - + -
146A LEU* 5.9 1.6 - - + -
100D MET 5.3 0.7 - - - +
101D LEU* 4.4 11.2 - - + -
104D TYR* 2.8 27.1 + - + +
105D GLY* 3.6 9.2 - - - +
107D THR* 1.3 77.8 - - + +
109D LYS* 1.3 55.5 + - - +
111D LEU* 4.0 3.0 - - - +
112D VAL* 2.8 38.6 + - + +
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Residues in contact with LYS 109 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A ASP* 3.1 31.4 + - - +
93A THR* 4.0 14.9 + - + -
94A MET* 3.9 13.4 - - + +
97A PHE* 5.5 0.8 - - - -
4B SER* 4.7 1.8 - - - +
5B GLN 3.2 27.4 - - - +
6B ILE* 5.2 3.6 - - + -
78B ILE* 4.3 3.0 - - - +
79B PRO 2.9 26.8 + - - -
80B LEU* 3.9 15.5 - - + -
81B ARG* 4.8 1.2 - - - +
105D GLY 3.1 13.7 + - - +
106D THR* 3.6 9.4 - - - +
108D LEU* 1.3 75.4 - - - +
110D ALA* 1.3 64.6 - - - +
112D VAL* 3.3 1.2 + - - +
113D HIS* 2.9 64.6 + - + +
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Residues in contact with ALA 110 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A PHE* 3.6 32.0 - - + -
44A THR* 4.1 11.7 - - + -
48A LEU* 4.2 5.2 - - + -
4B SER* 3.8 17.4 + - - +
6B ILE* 5.5 3.6 - - + +
106D THR 2.9 18.3 + - - +
107D THR 3.7 3.8 - - - +
109D LYS* 1.3 77.0 - - - +
111D LEU* 1.3 58.5 + - - +
113D HIS* 3.5 2.4 + - - +
114D GLU* 2.9 27.9 + - - +
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Residues in contact with LEU 111 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A PHE* 3.9 12.8 - - + -
40A GLU* 3.7 26.9 - - + +
41A ALA* 3.8 36.8 - - + +
44A THR* 3.7 20.0 - - + +
128A LEU* 6.0 0.7 - - + -
130A VAL* 4.8 20.0 - - + +
107D THR* 2.9 31.9 + - + +
108D LEU* 4.2 1.6 - - - +
110D ALA* 1.3 73.7 - - - +
112D VAL* 1.3 61.7 + - - +
114D GLU* 3.8 5.1 - - + +
115D LYS* 2.9 46.0 + - - +
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Residues in contact with VAL 112 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A THR* 4.2 20.2 - - + -
97A PHE* 4.7 12.3 - - + -
130A VAL* 4.8 15.9 - - + -
144A ILE* 5.3 0.7 - - + -
108D LEU* 2.8 27.2 + - + +
109D LYS 3.8 3.1 - - - +
111D LEU* 1.3 74.9 - - - +
113D HIS* 1.3 61.6 + - - +
116D PHE* 2.8 37.0 + - + +
117D GLY 3.2 11.7 + - - +
119D GLY 4.7 3.4 - - - +
120D ILE 4.7 1.3 - - - -
121D ILE* 3.8 42.6 - - + +
150D TYR* 4.9 0.9 - - + -
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Residues in contact with HIS 113 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A THR* 3.4 26.0 - - + -
2B ILE* 3.5 13.2 - - + +
4B SER* 3.7 24.5 - - - +
78B ILE* 3.5 34.0 - - + +
81B ARG* 5.0 0.4 - - - -
109D LYS* 2.9 55.0 + - + +
110D ALA 3.8 3.4 - - - +
112D VAL* 1.3 78.5 - - - +
114D GLU* 1.3 62.4 + - - +
117D GLY* 3.0 43.8 + - - -
118D ASP* 3.8 1.7 - - - -
119D GLY 3.6 15.3 - - - -
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Residues in contact with GLU 114 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LYS* 4.4 2.9 + - - -
28A SER* 3.5 17.3 - - - -
29A PHE* 2.8 38.0 + - + -
30A ALA* 3.1 29.1 + - - +
40A GLU* 3.5 8.8 - - - +
1B MET* 3.9 20.4 - - + +
2B ILE* 3.8 9.7 - - + +
110D ALA 2.9 18.1 + - - +
111D LEU* 3.4 7.6 + - + +
112D VAL 3.3 0.2 - - - -
113D HIS* 1.3 78.4 - - - +
115D LYS* 1.3 64.1 + - + +
116D PHE 5.1 0.5 - - - -
117D GLY 5.0 0.2 + - - -
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Residues in contact with LYS 115 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A GLU* 3.5 27.1 + - - +
130A VAL* 3.4 41.7 + - + +
131A LYS* 5.3 2.8 - - - +
132A LYS* 2.9 35.9 + - + +
1159A SO4 5.4 4.2 + - - -
111D LEU* 2.9 32.7 + - + +
114D GLU* 1.3 78.2 - - + +
116D PHE* 1.3 74.1 + - + +
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Residues in contact with PHE 116 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A VAL* 4.0 14.8 - - + -
131A LYS 4.0 0.4 - - - -
132A LYS* 3.6 35.5 + - + +
140A GLU* 3.7 19.0 - - + +
141A ARG 3.5 20.2 - - - -
142A ALA* 3.3 34.1 - - + -
112D VAL* 2.8 23.4 + - - +
113D HIS 4.0 0.2 - - - -
114D GLU 5.1 0.2 - - - -
115D LYS* 1.3 95.6 - - + +
117D GLY* 1.3 57.2 + - - +
121D ILE* 4.2 5.8 - - + -
150D TYR* 3.2 53.7 + + + -
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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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