Contacts of the helix formed by residues 91 - 116 (chain B) in PDB entry 2IVB
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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89B PRO* 3.5 1.2 - - - +
90B THR* 1.3 79.1 + - - +
92B PRO* 1.4 63.0 - - - +
93B THR* 3.2 24.2 + - - -
94B MET* 3.2 14.6 + - + +
95B TYR* 2.7 34.5 + - - +
79E PRO 3.5 1.9 - - - +
80E LEU* 3.8 19.0 - - + +
81E ARG* 3.1 30.2 + - - +
109F LYS* 3.1 38.1 + - - +
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Residues in contact with PRO 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B THR 3.4 6.0 - - - +
91B ASP* 1.4 89.4 - - - +
93B THR* 1.3 61.6 + - - +
95B TYR* 3.2 1.1 + - + -
96B ARG* 3.0 33.9 + - - +
81E ARG* 3.6 23.3 - - + +
124E ILE* 3.9 19.3 - - + -
120F ILE* 3.9 5.6 - - + -
99G GLU* 3.3 44.6 - - + +
103G VAL* 4.0 15.0 - - + -
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Residues in contact with THR 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B ASP* 3.2 14.1 + - - -
92B PRO* 1.3 78.6 - - - +
94B MET* 1.3 61.1 + - - +
96B ARG* 3.7 7.4 + - - +
97B PHE* 3.5 20.6 - - + -
81E ARG* 5.0 4.3 + - - -
109F LYS* 4.0 25.7 + - - +
112F VAL* 4.1 22.9 - - + -
113F HIS* 3.4 16.5 + - + -
119F GLY 2.8 26.4 + - - +
120F ILE* 3.8 12.3 - - - +
121F ILE 5.2 2.6 + - - +
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Residues in contact with MET 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B CYS* 4.1 7.9 - - - +
84B ILE* 4.5 18.6 - - + -
89B PRO* 3.8 21.4 - - + +
91B ASP* 3.2 17.5 + - + +
93B THR* 1.3 73.8 - - - +
95B TYR* 1.4 67.5 + - - +
97B PHE* 3.1 25.9 + - - +
98B TYR 3.5 3.6 + - - -
80E LEU* 3.7 28.7 - - - -
101F LEU* 5.4 0.9 - - - +
105F GLY* 3.6 39.0 - - - +
106F THR* 3.9 20.4 - - + +
109F LYS* 3.9 11.9 - - + +
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Residues in contact with TYR 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B ILE* 4.1 9.4 - - + -
89B PRO* 3.6 23.3 - - + +
90B THR 5.1 0.2 - - - -
91B ASP 2.7 23.8 + - - +
92B PRO* 3.2 7.8 + - + +
94B MET* 1.4 72.5 - - - +
96B ARG* 1.3 70.4 + - - +
98B TYR* 2.9 41.3 + + + +
99B GLU* 2.8 55.3 + - + +
102B GLN* 5.0 2.1 - - - +
88G ILE* 5.9 0.4 - - + +
89G PRO 4.2 6.6 + - - -
90G THR* 4.7 7.6 + - - -
95G TYR* 3.4 63.5 - + - +
99G GLU* 4.3 2.2 - - - +
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Residues in contact with ARG 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B PRO* 3.0 32.2 + - - +
93B THR 3.9 7.9 - - - +
94B MET 3.2 0.8 - - - -
95B TYR* 1.3 89.0 - - - +
97B PHE* 1.3 61.8 + - + +
99B GLU* 3.4 6.2 + - - +
100B MET* 3.0 26.0 + - - +
124E ILE* 4.1 3.6 - - - +
120F ILE* 3.3 21.5 - - + +
121F ILE 3.4 25.4 - - - +
123F ALA* 3.8 19.3 - - + +
96G ARG* 3.4 22.5 - - - +
99G GLU* 2.7 43.4 + - - -
1161G AZI 3.1 41.4 + - - -
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Residues in contact with PHE 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B THR* 3.5 23.6 - - + -
94B MET* 3.1 12.4 + - - +
96B ARG* 1.3 78.5 - - + +
98B TYR* 1.3 65.4 + - - +
100B MET* 3.4 26.8 - - + +
101B LEU* 3.5 5.4 + - - +
144B ILE* 3.3 40.2 - - + -
146B LEU* 6.6 0.2 - - + -
100F MET* 5.4 3.1 - - + -
101F LEU* 3.4 30.8 - - + +
105F GLY* 5.8 1.6 - - - -
108F LEU* 4.1 40.2 - - + -
109F LYS 5.5 0.2 - - - -
112F VAL* 4.9 9.2 - - + -
121F ILE* 4.6 16.4 - - + -
146F LEU* 5.0 13.0 - - + -
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Residues in contact with TYR 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B ILE* 3.4 33.4 - - + +
89B PRO* 4.0 22.0 - - + -
94B MET 3.5 3.0 + - - -
95B TYR* 2.9 38.4 + + + +
97B PHE* 1.3 75.5 - - - +
99B GLU* 1.3 64.1 + - - +
101B LEU* 2.9 18.1 + - + +
102B GLN* 3.0 41.9 + - + +
84F ILE* 4.4 7.4 - - + -
87F ARG* 2.7 39.8 + - - +
98F TYR* 4.4 12.8 - + - -
101F LEU* 3.5 23.7 - - + +
90G THR* 6.5 0.2 - - - -
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Residues in contact with GLU 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B TYR* 2.8 40.1 + - + +
96B ARG* 3.7 9.6 - - - +
98B TYR* 1.3 74.5 - - - +
100B MET* 1.3 62.8 + - - +
102B GLN* 3.0 10.3 + - + -
103B VAL* 2.9 28.5 + - + +
123F ALA* 3.2 18.3 - - + +
124F ILE* 4.5 2.6 - - - +
90G THR 4.9 2.3 - - - +
92G PRO* 3.3 34.7 - - + +
95G TYR* 4.5 1.7 - - - +
96G ARG* 2.8 43.4 + - - -
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Residues in contact with MET 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B ARG 3.0 14.1 + - - +
97B PHE* 3.4 22.2 - - + +
99B GLU* 1.3 75.7 - - - +
101B LEU* 1.3 56.3 + - + +
103B VAL* 4.8 3.8 - - - -
104B TYR* 2.8 43.4 + - + +
108B LEU* 4.0 25.6 - - + -
146B LEU* 4.5 14.1 - - + -
97F PHE* 5.3 6.1 - - + -
100F MET* 4.7 12.8 - - + -
101F LEU* 5.7 0.4 - - + -
123F ALA* 4.7 6.0 - - + +
126F PHE* 4.4 18.6 - - + -
128F LEU* 4.8 0.2 - - - -
146F LEU* 3.6 36.3 - - + -
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Residues in contact with LEU 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B PHE 3.5 5.4 + - - +
98B TYR* 2.9 17.7 + - + +
100B MET* 1.3 84.4 - - + +
102B GLN* 1.3 59.6 + - - +
105B GLY* 2.8 43.9 + - - +
108B LEU* 5.7 0.7 - - + -
83F CYS* 3.3 6.2 - - - -
84F ILE* 3.4 24.6 - - + +
89F PRO* 3.9 11.0 - - + -
94F MET* 3.9 23.3 - - + +
97F PHE* 4.2 15.7 - - + -
98F TYR* 3.7 39.7 - - + +
101F LEU* 4.8 3.1 - - + -
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Residues in contact with GLN 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B TYR* 5.0 3.1 - - - +
98B TYR* 3.0 46.6 + - + +
99B GLU* 3.0 12.8 + - + +
101B LEU* 1.3 75.8 - - - +
103B VAL* 1.3 63.0 + - + +
50F GLN* 3.7 0.5 - - - +
82F GLY* 3.2 26.0 + - - -
83F CYS* 2.7 29.2 + - - +
84F ILE* 3.2 44.8 + - + +
87F ARG* 4.4 5.4 - - - +
90G THR* 3.7 35.1 - - - +
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Residues in contact with VAL 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B GLU* 2.9 23.7 + - + +
100B MET* 4.8 0.9 - - - -
102B GLN* 1.3 82.2 - - + +
104B TYR* 1.3 86.6 + - + +
105B GLY 3.7 0.7 - - - -
106B THR* 5.0 0.9 + - - -
107B THR* 4.8 1.2 + - - -
45F ALA* 4.8 1.4 - - - +
50F GLN* 3.1 47.4 - - + +
51F GLN* 4.0 14.1 - - - +
81F ARG* 4.4 13.5 - - + -
83F CYS* 4.7 1.3 - - - -
123F ALA* 5.6 7.2 - - + +
124F ILE* 6.1 1.6 - - + -
92G PRO* 4.0 26.7 - - + -
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Residues in contact with TYR 104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B MET* 2.8 27.1 + - + +
103B VAL* 1.3 90.4 - - + +
105B GLY* 1.3 57.4 + - - -
106B THR 3.4 2.9 - - - -
107B THR* 3.1 16.4 + - + -
108B LEU* 2.8 32.5 + - + +
156E PHE* 3.4 29.3 - + - -
41F ALA* 3.9 13.0 - - + -
42F PHE* 4.3 0.9 - - - -
45F ALA* 3.6 28.5 - - + -
51F GLN* 3.0 24.7 + - - +
123F ALA 5.5 3.8 - - - -
126F PHE* 4.0 27.0 - + + +
128F LEU* 3.7 31.0 - - + -
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Residues in contact with GLY 105 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B MET 3.8 0.2 + - - -
101B LEU* 2.8 47.1 + - - -
103B VAL 3.7 0.8 - - - -
104B TYR* 1.3 71.1 - - - +
106B THR* 1.3 57.9 + - - +
108B LEU* 3.5 8.7 + - - +
109B LYS* 3.0 25.6 + - - +
83F CYS* 3.8 2.8 - - - -
94F MET* 3.7 14.0 - - - +
97F PHE* 5.9 0.4 - - - -
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Residues in contact with THR 106 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B VAL 5.0 0.5 + - - -
105B GLY* 1.3 75.2 - - - +
107B THR* 1.3 53.9 + - - +
109B LYS* 3.4 7.8 + - + +
110B ALA* 2.8 35.5 + - - +
6D ILE* 3.9 42.0 - - + +
80D LEU* 5.2 0.2 - - + -
48F LEU* 3.7 20.4 + - - +
50F GLN* 4.7 4.5 - - - +
83F CYS* 3.4 39.5 - - + +
94F MET* 3.8 17.7 - - + -
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Residues in contact with THR 107 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B VAL 4.8 1.2 + - - -
104B TYR* 3.1 23.0 + - + -
106B THR* 1.3 76.9 + - - +
108B LEU* 1.3 59.7 + - - +
110B ALA* 3.7 0.6 - - - +
111B LEU* 2.9 47.1 + - + +
41F ALA* 3.6 27.6 - - + +
44F THR* 3.8 12.8 - - + -
45F ALA* 3.1 29.1 + - - +
48F LEU* 3.9 11.4 - - - +
50F GLN* 5.6 0.2 - - - +
128F LEU* 5.6 2.5 - - + -
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Residues in contact with LEU 108 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B MET* 4.0 25.8 - - + -
101B LEU* 5.7 0.7 - - + -
104B TYR* 2.8 26.0 + - + +
105B GLY* 3.6 9.2 - - - +
107B THR* 1.3 76.5 - - + +
109B LYS* 1.3 62.7 + - - +
111B LEU* 4.9 2.0 - - - -
112B VAL* 2.9 31.6 + - + +
146B LEU* 6.0 0.7 - - + -
97F PHE* 3.9 41.7 - - + -
128F LEU* 4.3 10.8 - - + -
130F VAL* 4.0 24.2 - - + -
144F ILE* 4.1 27.4 - - + -
146F LEU* 6.1 0.4 - - + -
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Residues in contact with LYS 109 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B GLY 3.0 14.8 + - - +
106B THR* 3.5 8.3 - - - +
107B THR 3.3 0.2 - - - -
108B LEU* 1.3 77.4 - - - +
110B ALA* 1.3 63.5 + - - +
112B VAL* 3.4 1.2 + - - +
113B HIS* 2.8 64.7 + - + +
4D SER* 4.8 1.6 - - - +
5D GLN 3.3 21.8 - - - +
6D ILE* 5.4 4.0 - - + -
78D ILE* 4.4 2.2 - - - +
79D PRO 2.9 28.7 + - - -
80D LEU* 3.9 17.5 - - + -
81D ARG* 4.8 1.4 - - - +
91F ASP* 3.0 32.5 + - - +
93F THR* 4.0 14.3 + - + -
94F MET* 3.9 13.2 - - + +
97F PHE* 5.6 0.6 - - - -
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Residues in contact with ALA 110 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106B THR 2.8 21.4 + - - +
107B THR 3.7 4.0 - - - +
109B LYS* 1.3 75.4 - - - +
111B LEU* 1.3 57.6 + - - +
113B HIS* 3.5 2.6 + - - +
114B GLU* 3.1 27.7 + - - +
4D SER* 3.9 16.1 + - - +
6D ILE* 5.5 4.0 - - + -
29F PHE* 3.6 32.6 - - + -
44F THR* 4.1 12.3 - - + -
48F LEU* 4.1 4.3 - - + -
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Residues in contact with LEU 111 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107B THR* 2.9 41.5 + - + +
108B LEU 4.3 1.1 - - - +
110B ALA* 1.3 71.3 - - - +
112B VAL* 1.3 61.8 + - - +
114B GLU* 3.8 6.7 - - - +
115B LYS* 2.9 44.9 + - - +
29F PHE* 4.2 17.7 - - + -
40F GLU* 4.3 16.2 - - + +
41F ALA* 4.0 16.2 - - + +
44F THR* 4.1 16.8 - - + +
130F VAL* 4.2 19.7 - - + -
1159F CL 4.0 23.8 - - + -
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Residues in contact with VAL 112 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B LEU* 2.9 25.4 + - + +
109B LYS 3.7 2.9 - - - +
111B LEU* 1.3 75.9 - - - +
113B HIS* 1.3 59.2 + - - +
116B PHE* 2.8 46.5 + - + +
117B GLY 4.5 7.9 - - - +
119B GLY 4.8 4.5 - - - +
121B ILE* 3.7 41.3 - - + +
150B TYR* 4.9 2.7 - - + -
93F THR* 4.1 20.4 - - + -
97F PHE* 4.9 9.4 - - + -
130F VAL* 4.8 8.7 - - + -
144F ILE* 5.1 3.4 - - + -
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Residues in contact with HIS 113 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B LYS* 2.8 59.1 + - + +
110B ALA 3.9 3.6 - - - +
112B VAL* 1.3 75.5 - - - +
114B GLU* 1.3 59.8 + - - +
117B GLY* 2.9 45.1 + - - -
118B ASP* 3.9 6.1 - - - -
119B GLY 3.5 12.1 - - - -
2D ILE* 3.4 14.6 - - + +
4D SER* 3.8 24.5 - - - +
78D ILE* 3.6 33.9 - - + +
81D ARG* 5.0 0.4 - - - -
93F THR* 3.4 24.5 - - + -
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Residues in contact with GLU 114 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B ALA 3.1 17.9 + - - +
111B LEU* 3.8 8.9 - - + +
112B VAL 3.3 0.2 - - - -
113B HIS* 1.3 77.9 - - - +
115B LYS* 1.3 65.0 + - + +
116B PHE 5.2 0.3 - - - -
117B GLY 5.0 0.2 + - - -
1D MET* 2.7 37.6 - - + +
2D ILE* 3.5 15.8 - - + +
22F LYS* 4.2 1.6 + - - -
28F SER* 3.3 4.5 - - - -
29F PHE* 2.8 36.9 + - + +
30F ALA* 3.1 31.2 + - - +
40F GLU* 4.6 3.3 - - - +
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Residues in contact with LYS 115 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B LEU* 2.9 27.6 + - + +
114B GLU* 1.3 83.5 - - + +
116B PHE* 1.4 65.9 + - + +
40F GLU* 2.8 35.2 + - - -
130F VAL* 3.2 42.9 + - + +
131F LYS* 4.9 5.5 - - - +
132F LYS* 2.6 42.7 + - + +
1159F CL 4.3 0.4 - - - -
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Residues in contact with PHE 116 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B VAL* 2.8 33.7 + - + +
113B HIS 4.0 0.2 - - - -
114B GLU 5.1 0.4 - - - -
115B LYS* 1.4 90.0 - - + +
117B GLY* 1.4 56.9 + - - +
121B ILE* 4.3 2.2 - - + -
150B TYR* 3.2 57.9 + + + -
130F VAL* 4.1 15.3 - - + -
131F LYS 3.7 1.6 - - - -
132F LYS* 3.4 36.5 + - + +
140F GLU* 4.6 3.3 - - + +
141F ARG 3.3 27.4 - - - -
142F ALA* 3.3 33.4 - - + -
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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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