Contacts of the helix formed by residues 82 - 111 (chain L) in PDB entry 3IS7
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 82 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L TRP* 4.0 8.1 - - - -
81L GLU* 1.3 81.7 - - - +
83L THR* 1.3 58.7 + - - +
84L GLN* 3.3 9.8 + - - +
85L GLU* 2.9 38.4 + - - +
86L MET* 2.9 34.0 + - - +
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Residues in contact with THR 83 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32L TRP* 3.0 28.9 + - + +
35L TRP* 4.4 3.6 - - - -
37L LEU* 3.9 4.7 - - - +
40L LEU* 4.1 9.2 - - + -
82L ASN* 1.3 74.9 - - - +
84L GLN* 1.3 64.8 + - - +
86L MET* 3.2 12.5 + - - +
87L LEU* 3.0 42.5 + - + +
141L ILE* 4.7 2.7 - - + -
146L LEU* 5.0 3.8 - - + -
149L TYR* 4.2 6.3 - - + -
150L LEU* 3.5 34.5 - - + +
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Residues in contact with GLN 84 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82L ASN* 3.3 7.8 + - - +
83L THR* 1.3 81.9 - - - +
85L GLU* 1.3 60.9 + - + +
87L LEU* 3.5 4.5 + - - +
88L GLN* 3.1 23.6 + - + +
138L LEU* 3.6 26.9 + - + +
141L ILE* 3.7 40.5 - - + +
142L GLN* 4.2 12.8 + - - +
146L LEU* 5.0 12.9 - - + +
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Residues in contact with GLU 85 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79L ILE 5.1 0.2 - - - +
80L GLY* 3.8 11.9 - - - -
81L GLU* 3.0 36.4 + - - +
82L ASN* 2.9 34.8 + - - +
84L GLN* 1.3 71.8 - - + +
86L MET* 1.3 56.7 + - - +
88L GLN* 3.2 6.7 + - - +
89L CYS* 2.7 41.5 + - - -
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Residues in contact with MET 86 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28L HIS* 3.5 58.8 - - + +
31L MET* 4.0 18.4 - - + -
32L TRP* 3.5 38.4 - - + +
35L TRP* 3.5 20.2 - - + -
80L GLY* 3.9 12.8 - - - -
82L ASN* 2.9 30.2 + - - +
83L THR 3.2 5.4 + - - +
85L GLU* 1.3 72.2 - - - +
87L LEU* 1.3 61.2 + - - +
89L CYS* 3.2 2.3 + - - +
90L ASP* 2.9 36.0 + - - +
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Residues in contact with LEU 87 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32L TRP* 4.0 21.5 - - + -
40L LEU* 4.7 7.2 - - + -
44L GLU* 5.9 0.4 - - - +
83L THR* 3.0 35.2 + - + +
84L GLN 3.8 0.2 - - - +
86L MET* 1.3 78.0 - - - +
88L GLN* 1.3 62.8 + - - +
90L ASP* 3.3 8.2 + - - +
91L LEU* 3.1 23.7 + - - +
133L TYR* 4.7 4.0 - - + -
134L LEU* 4.0 25.0 - - + +
137L GLN* 4.1 23.3 - - + -
138L LEU* 3.7 23.0 - - + +
141L ILE* 3.9 22.2 - - + -
149L TYR* 4.2 4.9 - - - +
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Residues in contact with GLN 88 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84L GLN* 3.1 18.3 + - + +
85L GLU* 3.7 7.2 - - - +
87L LEU* 1.3 77.3 - - - +
89L CYS* 1.3 59.8 + - - +
91L LEU* 3.4 19.6 + - - +
92L ASN* 2.8 59.9 + - - +
95L LEU* 5.6 1.2 - - - +
138L LEU* 4.0 19.0 - - + +
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Residues in contact with CYS 89 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L GLN* 3.2 10.0 + - - +
28L HIS* 4.2 2.5 - - + -
78L LEU* 3.1 45.6 - - + +
79L ILE 4.2 1.6 - - - -
80L GLY* 3.9 16.6 - - - -
85L GLU* 2.7 25.2 + - - +
86L MET 3.5 5.8 - - - +
88L GLN* 1.3 79.0 - - - +
90L ASP* 1.3 61.6 + - - +
92L ASN* 3.6 9.1 + - - +
93L LEU* 3.1 18.0 + - - +
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Residues in contact with ASP 90 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24L GLN* 3.0 21.1 + - - +
25L TYR* 3.5 19.5 + - + -
28L HIS* 3.0 17.3 + - - -
32L TRP* 4.7 3.8 - - - -
44L GLU* 2.4 34.3 - - - +
86L MET 2.9 17.7 + - - +
87L LEU* 3.3 5.8 + - - +
89L CYS* 1.3 75.6 - - - +
91L LEU* 1.3 57.2 + - - +
93L LEU* 3.3 4.9 + - - +
94L GLU* 3.0 30.8 + - - +
130L HIS* 4.6 0.6 + - + -
134L LEU* 4.0 23.6 - - + +
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Residues in contact with LEU 91 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87L LEU 3.1 15.9 + - - +
88L GLN* 3.7 18.4 - - - +
90L ASP* 1.3 73.6 - - - +
92L ASN* 1.3 58.9 - - - +
94L GLU* 3.1 1.9 + - - +
95L LEU* 2.9 50.7 + - + +
131L ILE* 3.8 39.9 - - + -
134L LEU* 3.8 12.3 - - + +
135L GLU* 4.1 23.3 - - + +
138L LEU* 3.9 23.8 - - + -
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Residues in contact with ASN 92 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78L LEU* 4.0 14.0 - - + +
88L GLN* 2.8 51.0 + - - +
89L CYS* 3.8 10.3 - - - +
91L LEU* 1.3 74.5 - - - +
93L LEU* 1.3 63.3 + - - +
95L LEU* 3.5 12.4 + - - +
96L LYS* 3.2 21.5 + - - +
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Residues in contact with LEU 93 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17L ASN* 4.9 6.7 - - + +
20L ILE* 3.8 25.4 - - + -
21L ALA* 3.6 40.4 - - + +
24L GLN* 3.5 27.4 - - - +
25L TYR* 4.1 7.9 - - + +
76L LYS 5.0 1.6 - - - +
78L LEU* 4.1 13.4 - - + +
89L CYS 3.1 14.3 + - - +
90L ASP 3.4 8.7 - - - +
92L ASN* 1.3 76.8 - - - +
94L GLU* 1.3 58.0 + - - +
96L LYS* 3.3 12.0 + - + +
97L ALA* 3.0 28.1 + - + +
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Residues in contact with GLU 94 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21L ALA* 5.9 0.4 - - - -
25L TYR* 2.6 31.1 + - - +
51L GLU* 4.2 2.7 - - - +
90L ASP 3.0 15.1 + - - +
91L LEU* 3.1 3.1 + - - +
93L LEU* 1.3 76.1 - - - +
95L LEU* 1.3 58.4 + - - +
97L ALA* 3.6 7.7 - - - +
98L THR* 2.9 32.1 + - - -
127L GLU* 2.4 46.6 - - - +
130L HIS* 2.7 29.3 + - + +
131L ILE* 3.6 24.3 - - + +
134L LEU* 4.4 4.3 - - + -
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Residues in contact with LEU 95 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88L GLN* 5.6 0.9 - - - +
91L LEU* 2.9 42.4 + - + +
92L ASN* 3.8 13.5 - - - +
94L GLU* 1.3 76.9 - - - +
96L LYS* 1.3 61.7 + - - +
98L THR* 3.1 22.8 - - + +
99L LYS* 3.3 9.4 + - - +
131L ILE* 4.2 19.7 - - + -
135L GLU* 5.5 3.1 - - - +
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Residues in contact with LYS 96 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13L LYS* 5.2 6.5 - - - +
17L ASN* 4.1 13.1 + - - +
20L ILE* 6.3 0.2 - - - +
92L ASN 3.2 14.1 + - - +
93L LEU* 3.7 14.4 - - + +
94L GLU 3.3 0.2 - - - -
95L LEU* 1.3 77.5 - - - +
97L ALA* 1.3 63.4 + - - +
99L LYS* 3.2 23.4 + - - +
100L ASP* 3.0 46.5 + - - +
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Residues in contact with ALA 97 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14L ILE* 4.8 0.7 - - - +
17L ASN* 3.8 28.3 + - + +
18L GLU* 6.1 0.7 - - - +
51L GLU* 6.2 0.2 - - - +
93L LEU* 3.0 19.5 + - + +
94L GLU* 3.6 18.4 - - - +
96L LYS* 1.3 77.4 - - - +
98L THR* 1.3 57.4 + - - +
100L ASP* 3.3 3.3 + - - +
101L LEU* 2.9 41.5 + - + +
127L GLU* 5.0 4.5 - - + -
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Residues in contact with THR 98 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94L GLU 2.9 15.2 + - - +
95L LEU* 3.1 30.7 - - + +
97L ALA* 1.3 76.4 - - - +
99L LYS* 1.3 65.0 + - - +
101L LEU* 3.6 7.9 - - - +
102L ARG* 3.0 49.1 + - - +
124L LEU* 3.0 26.0 - - - +
127L GLU* 5.1 5.3 - - - +
128L GLU* 4.4 5.2 - - - +
131L ILE* 4.4 12.2 - - + +
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Residues in contact with LYS 99 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95L LEU 3.7 7.6 - - - +
96L LYS* 3.2 29.1 + - - +
98L THR* 1.3 80.3 - - + +
100L ASP* 1.3 70.1 + - - +
102L ARG* 3.2 10.5 + - - +
103L GLU* 3.1 46.7 + - + +
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Residues in contact with ASP 100 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10L HIS* 4.9 1.7 + - - -
13L LYS* 3.7 31.0 + - + -
14L ILE* 3.7 12.0 - - + +
17L ASN* 2.8 31.6 + - - +
96L LYS* 3.0 41.2 + - - +
97L ALA 3.6 3.6 - - - +
99L LYS* 1.3 84.4 + - - +
101L LEU* 1.3 57.8 + - - +
103L GLU* 3.3 12.2 + - - +
104L ALA* 2.9 30.5 + - - +
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Residues in contact with LEU 101 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14L ILE* 3.7 34.7 - - + +
18L GLU* 5.3 0.9 - - - +
97L ALA* 2.9 28.3 + - + +
98L THR* 3.6 9.0 - - - +
100L ASP* 1.3 72.4 - - - +
102L ARG* 1.3 67.0 + - - +
104L ALA* 3.3 2.7 + - - +
105L ILE* 2.9 30.5 + - + +
120L LEU* 3.9 29.8 - - + +
123L ILE* 3.9 12.8 - - + -
124L LEU* 4.2 24.0 - - + -
127L GLU* 3.9 28.0 - - + -
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Residues in contact with ARG 102 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B VAL 5.5 0.2 - - - -
112B HIS* 3.0 43.3 + - + +
113B ASP* 4.0 10.1 + - - +
114B TYR* 4.0 19.1 - - + +
98L THR* 3.0 40.6 + - - +
99L LYS* 3.2 7.5 + - - +
101L LEU* 1.3 76.8 - - - +
103L GLU* 1.3 58.2 + - + +
105L ILE* 3.1 2.8 + - - +
106L VAL* 2.9 32.7 + - - +
124L LEU* 3.9 14.7 - - + +
128L GLU* 2.7 32.9 + - - +
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Residues in contact with GLU 103 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B HIS* 6.0 0.7 - - - -
10L HIS* 4.0 17.2 + - + -
13L LYS* 4.8 9.2 + - - -
99L LYS* 3.1 42.2 + - + +
100L ASP* 3.7 14.3 - - - +
101L LEU 3.3 0.2 - - - -
102L ARG* 1.3 78.0 - - + +
104L ALA* 1.3 62.3 + - - +
106L VAL* 3.3 9.9 + - - +
107L HIS* 3.1 21.8 + - - +
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Residues in contact with ALA 104 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10L HIS* 3.6 33.1 + - + +
14L ILE* 4.2 13.2 - - + -
100L ASP 2.9 17.8 + - - +
101L LEU* 3.6 4.5 - - - +
103L GLU* 1.3 73.6 - - - +
105L ILE* 1.3 66.7 + - - +
107L HIS* 3.3 2.6 + - - +
108L CYS* 3.1 26.9 + - - -
120L LEU* 3.6 20.0 - - + -
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Residues in contact with ILE 105 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B TYR* 3.5 46.7 - - + -
101L LEU 2.9 21.9 + - - +
102L ARG 3.1 3.6 + - - +
104L ALA* 1.3 76.5 - - - +
106L VAL* 1.3 64.1 + - - +
108L CYS* 3.2 5.9 + - - +
109L GLU* 3.1 21.3 + - - +
117L ARG* 3.7 29.7 - - + +
120L LEU* 3.6 26.0 - - + +
121L LYS* 3.9 27.6 - - + +
124L LEU* 4.0 13.5 - - + -
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Residues in contact with VAL 106 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B HIS* 3.3 31.9 - - + +
114B TYR* 3.3 20.6 - - - +
102L ARG 2.9 13.3 + - - +
103L GLU* 3.4 12.8 - - - +
105L ILE* 1.3 78.2 - - - +
107L HIS* 1.3 65.6 + - + +
109L GLU* 3.3 6.7 + - - +
110L GLN* 3.2 23.1 + - + +
117L ARG* 6.1 0.2 - - - +
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Residues in contact with HIS 107 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4L ASP* 2.9 23.1 + - - -
6L LYS* 3.2 26.0 - - + +
7L VAL* 3.5 33.2 - - + -
10L HIS* 3.8 29.6 - + + +
103L GLU 3.1 5.2 + - - +
104L ALA 3.3 2.7 + - - +
105L ILE 3.3 0.2 - - - -
106L VAL* 1.3 82.7 - - + +
108L CYS* 1.4 63.3 + - - +
110L GLN* 3.2 27.8 + - - +
111L VAL* 3.1 41.4 + - + +
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Residues in contact with CYS 108 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7L VAL* 4.2 17.9 - - - -
10L HIS* 6.1 2.0 - - - -
11L LEU* 5.5 0.4 - - - -
104L ALA 3.1 19.1 + - - -
105L ILE 3.8 6.1 - - - +
107L HIS* 1.4 72.5 - - - +
109L GLU* 1.3 61.9 + - - +
111L VAL* 3.4 7.9 + - - -
112L HIS 2.9 8.5 + - - -
113L ASP* 2.8 44.6 + - + +
116L SER* 3.7 26.7 - - - -
117L ARG* 3.8 13.5 - - + +
120L LEU* 3.8 13.5 - - - -
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Residues in contact with GLU 109 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B GLU* 4.3 6.0 - - - +
109C GLU* 4.1 10.7 - - - +
117C ARG* 2.7 24.7 + - - -
105L ILE 3.1 10.7 + - - +
106L VAL* 3.5 11.0 - - - +
108L CYS* 1.3 77.1 - - - +
110L GLN* 1.3 57.9 + - - +
112L HIS* 2.9 28.6 + - - -
114L TYR* 3.5 25.3 + - - -
117L ARG* 2.8 50.0 + - - +
----------------------------------------------------------
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Residues in contact with GLN 110 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106L VAL* 3.2 13.8 + - + +
107L HIS* 3.2 36.6 + - - +
109L GLU* 1.3 80.4 - - - +
111L VAL* 1.3 64.1 + - + +
112L HIS* 3.5 13.3 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C ARG* 5.3 1.0 - - - -
4L ASP* 3.8 22.4 - - + +
7L VAL* 3.7 25.8 - - + -
107L HIS* 3.1 36.2 + - + +
108L CYS 3.7 6.1 - - - +
110L GLN* 1.3 81.4 - - + +
112L HIS* 1.3 75.6 + - - +
113L ASP* 3.3 8.4 + - + +
----------------------------------------------------------
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il