Contacts of the helix formed by residues 82 - 111 (chain F) 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 F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35F TRP* 4.1 8.3 - - - -
80F GLY 3.6 0.2 - - - -
81F GLU* 1.3 82.5 - - - +
83F THR* 1.3 59.3 + - - +
84F GLN* 3.4 9.2 + - - +
85F GLU* 2.8 37.2 + - - +
86F MET* 2.8 34.2 + - - +
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Residues in contact with THR 83 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32F TRP* 2.8 35.5 + - + +
35F TRP* 4.4 4.6 - - - -
37F LEU* 3.8 4.3 - - - +
40F LEU* 4.0 11.7 - - + -
82F ASN* 1.3 75.2 - - - +
84F GLN* 1.3 64.3 + - - +
86F MET* 3.1 4.9 + - - +
87F LEU* 3.0 38.6 + - + +
141F ILE* 4.8 2.9 - - + -
146F LEU* 5.1 3.6 - - + -
149F TYR* 4.4 5.8 - - + -
150F LEU* 3.5 34.5 - - + +
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Residues in contact with GLN 84 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82F ASN* 3.4 8.3 + - - +
83F THR* 1.3 78.7 - - - +
85F GLU* 1.3 63.2 + - - +
87F LEU* 3.4 4.2 + - - +
88F GLN* 3.1 24.6 + - + +
138F LEU* 4.0 18.3 + - + +
141F ILE* 3.4 47.4 - - + +
142F GLN* 3.6 15.7 + - - +
146F LEU* 4.9 15.6 - - + +
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Residues in contact with GLU 85 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80F GLY* 3.5 10.0 - - - -
81F GLU* 2.9 45.3 + - - +
82F ASN* 2.8 33.5 + - - +
84F GLN* 1.3 74.9 - - + +
86F MET* 1.3 59.3 + - - +
88F GLN* 3.2 6.3 + - - +
89F CYS* 2.8 37.4 + - - -
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Residues in contact with MET 86 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28F HIS* 3.5 59.6 - - + +
31F MET* 4.0 17.3 - - + -
32F TRP* 3.6 35.0 - - + +
35F TRP* 3.6 20.4 - - + -
80F GLY* 3.9 14.6 - - - +
82F ASN* 2.8 34.1 + - - +
83F THR 3.7 3.1 - - - +
85F GLU* 1.3 73.0 - - - +
87F LEU* 1.3 62.3 + - - +
89F CYS* 3.3 3.3 + - - +
90F ASP* 3.0 28.9 + - - +
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Residues in contact with LEU 87 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32F TRP* 4.1 20.2 - - + -
40F LEU* 4.8 4.3 - - + -
44F GLU* 6.0 0.4 - - - +
83F THR* 3.0 30.6 + - + +
84F GLN 3.9 2.9 - - - +
86F MET* 1.3 78.4 - - - +
88F GLN* 1.3 56.9 + - - +
90F ASP* 3.2 8.3 + - - +
91F LEU* 2.9 26.9 + - - +
133F TYR* 4.5 6.7 - - + -
134F LEU* 4.0 23.5 - - + +
137F GLN* 4.0 30.3 - - + -
138F LEU* 3.9 17.4 - - + +
141F ILE* 3.9 28.5 - - + -
149F TYR* 4.3 5.2 - - + +
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Residues in contact with GLN 88 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84F GLN* 3.1 18.2 + - + +
85F GLU* 3.8 5.8 - - - +
87F LEU* 1.3 72.9 - - - +
89F CYS* 1.3 61.5 + - - +
91F LEU* 3.1 21.2 + - - +
92F ASN* 2.8 66.2 + - - +
95F LEU* 5.6 1.2 - - - +
138F LEU* 4.2 19.7 - - + +
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Residues in contact with CYS 89 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24F GLN* 3.5 3.3 + - - +
28F HIS* 4.3 0.9 - - + -
78F LEU* 3.2 44.1 - - + +
79F ILE 4.2 1.1 - - - -
80F GLY* 3.9 17.7 - - - -
85F GLU* 2.8 25.5 + - - -
86F MET 3.6 7.4 - - - +
88F GLN* 1.3 78.8 - - - +
90F ASP* 1.3 62.0 + - - +
92F ASN* 3.3 11.1 + - - +
93F LEU* 2.9 24.8 + - - +
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Residues in contact with ASP 90 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24F GLN* 2.7 30.2 + - - +
25F TYR* 3.2 19.8 + - + +
28F HIS* 3.0 15.3 + - - -
32F TRP* 4.7 2.9 - - - -
44F GLU* 2.4 32.3 - - - +
86F MET 3.0 17.9 + - - +
87F LEU* 3.2 8.5 + - - +
89F CYS* 1.3 76.1 - - - +
91F LEU* 1.3 57.6 + - - +
93F LEU* 3.3 2.6 + - - +
94F GLU* 2.8 32.4 + - - +
130F HIS* 4.5 1.8 + - + -
134F LEU* 4.0 22.3 - - + +
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Residues in contact with LEU 91 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87F LEU 2.9 13.9 + - - +
88F GLN* 3.5 24.0 - - - +
89F CYS 3.1 0.2 - - - -
90F ASP* 1.3 75.7 - - - +
92F ASN* 1.3 66.1 + - - +
94F GLU* 3.1 2.2 + - - +
95F LEU* 2.9 49.2 + - + +
131F ILE* 4.1 28.7 - - + -
134F LEU* 3.8 17.6 - - + +
135F GLU* 4.1 22.4 - - + +
138F LEU* 3.9 23.1 - - + -
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Residues in contact with ASN 92 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78F LEU* 4.2 13.2 - - + +
88F GLN* 2.8 53.7 + - - +
89F CYS* 3.7 9.4 - - - +
91F LEU* 1.3 74.3 - - - +
93F LEU* 1.3 62.4 + - - +
95F LEU* 3.4 12.4 + - - +
96F LYS* 3.4 21.1 + - - +
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Residues in contact with LEU 93 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17F ASN* 4.9 5.2 - - + +
20F ILE* 3.8 26.5 - - + -
21F ALA* 3.7 35.9 - - + +
24F GLN* 3.6 23.8 - - - +
25F TYR* 4.1 8.3 - - - +
76F LYS 5.2 1.3 - - - +
78F LEU* 4.2 15.9 - - + +
89F CYS 2.9 17.9 + - - +
90F ASP 3.5 4.3 - - - +
92F ASN* 1.3 79.5 - - - +
94F GLU* 1.3 62.7 + - - +
95F LEU 3.3 0.2 + - - -
96F LYS* 3.4 12.9 + - + +
97F ALA* 3.0 22.5 + - + +
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Residues in contact with GLU 94 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21F ALA* 6.0 0.2 - - - -
25F TYR* 2.7 19.6 + - - +
51F GLU* 4.1 3.5 - - - +
90F ASP 2.8 22.9 + - - +
91F LEU* 3.1 4.2 + - - +
93F LEU* 1.3 77.1 - - - +
95F LEU* 1.3 61.7 + - - +
97F ALA* 3.2 8.7 + - - +
98F THR* 3.1 25.5 + - - -
127F GLU* 2.7 38.7 - - - +
130F HIS* 2.6 35.6 + - + +
131F ILE* 3.6 24.4 - - + +
134F LEU* 4.0 8.5 - - + -
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Residues in contact with LEU 95 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88F GLN* 5.6 0.9 - - - +
91F LEU* 2.9 43.8 + - + +
92F ASN* 4.0 12.3 - - - +
93F LEU 3.3 0.2 - - - -
94F GLU* 1.3 76.1 - - - +
96F LYS* 1.3 62.4 + - - +
98F THR* 3.3 12.2 - - + +
99F LYS* 3.2 25.6 + - - +
131F ILE* 4.1 22.0 - - + -
135F GLU* 5.7 1.8 - - - +
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Residues in contact with LYS 96 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13F LYS* 4.3 9.5 - - - +
17F ASN* 3.9 15.6 + - - +
92F ASN 3.4 9.8 + - - +
93F LEU* 3.6 15.9 - - + +
94F GLU 3.3 0.2 - - - -
95F LEU* 1.3 75.7 - - - +
97F ALA* 1.3 68.0 + - - +
98F THR 3.2 0.3 + - - -
99F LYS* 3.3 19.4 + - + +
100F ASP* 2.6 53.9 + - - +
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Residues in contact with ALA 97 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14F ILE* 4.9 0.3 - - - +
17F ASN* 4.0 27.5 + - + +
18F GLU* 6.0 1.1 - - - +
51F GLU* 6.1 0.4 - - - +
93F LEU* 3.0 17.0 + - + +
94F GLU* 3.2 22.0 + - - +
96F LYS* 1.3 77.0 - - - +
98F THR* 1.3 58.3 + - - +
100F ASP* 3.3 3.5 + - - +
101F LEU* 3.0 39.0 + - + +
127F GLU* 5.0 5.4 - - + +
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Residues in contact with THR 98 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94F GLU 3.1 13.1 + - - +
95F LEU* 3.3 19.5 - - + +
97F ALA* 1.3 75.0 - - - +
99F LYS* 1.3 69.7 + - + +
101F LEU* 3.2 8.7 + - - +
102F ARG* 3.0 48.3 + - - +
124F LEU* 3.2 20.9 - - - +
127F GLU* 4.2 9.8 - - - +
128F GLU* 4.3 2.8 - - - +
131F ILE* 4.2 17.8 - - + +
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Residues in contact with LYS 99 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95F LEU 3.2 8.8 + - - +
96F LYS* 3.3 26.6 + - + +
98F THR* 1.3 84.0 - - + +
100F ASP* 1.3 71.2 + - - +
102F ARG* 3.3 9.9 + - - +
103F GLU* 3.1 44.3 + - + +
----------------------------------------------------------
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Residues in contact with ASP 100 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10F HIS* 4.9 1.9 + - - -
13F LYS* 3.6 25.7 + - + -
14F ILE* 3.5 15.6 - - + +
17F ASN* 3.0 20.8 + - - +
96F LYS* 2.6 43.5 + - - +
97F ALA 3.7 7.2 - - - +
99F LYS* 1.3 90.6 - - - +
101F LEU* 1.3 62.5 + - - +
103F GLU* 3.4 12.6 + - - +
104F ALA* 3.0 18.9 + - - +
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Residues in contact with LEU 101 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14F ILE* 3.2 37.9 - - + +
18F GLU* 5.4 1.1 - - - +
97F ALA* 3.0 31.7 + - + +
98F THR* 3.2 10.7 + - - +
100F ASP* 1.3 78.7 - - - +
102F ARG* 1.3 58.3 + - - +
104F ALA* 3.2 3.7 + - - +
105F ILE* 2.9 34.2 + - + +
120F LEU* 3.7 31.6 - - + +
123F ILE* 4.1 13.0 - - + -
124F LEU* 4.1 17.5 - - + -
127F GLU* 4.0 24.0 - - + -
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Residues in contact with ARG 102 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98F THR* 3.0 34.9 + - - +
99F LYS* 3.6 10.7 - - - +
101F LEU* 1.3 73.8 - - - +
103F GLU* 1.3 65.4 + - + +
105F ILE* 3.1 3.4 + - - +
106F VAL* 2.9 30.6 + - - +
124F LEU* 3.8 23.9 - - + +
128F GLU* 2.9 31.9 + - - +
111G VAL 5.5 0.7 - - - -
112G HIS* 2.9 43.2 + - + +
113G ASP* 4.1 9.3 + - - +
114G TYR* 4.1 16.4 - - + +
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Residues in contact with GLU 103 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10F HIS* 4.0 16.3 - - + -
13F LYS* 4.9 7.6 + - - -
99F LYS* 3.1 41.0 + - + +
100F ASP* 3.7 16.0 - - - +
102F ARG* 1.3 75.4 - - + +
104F ALA* 1.3 63.0 + - - +
106F VAL* 3.3 9.1 + - - +
107F HIS* 3.2 20.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 104 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10F HIS* 3.6 35.3 + - + +
14F ILE* 4.3 10.8 - - + -
100F ASP 3.0 17.1 + - - +
101F LEU 3.7 1.8 - - - +
103F GLU* 1.3 75.1 - - - +
105F ILE* 1.3 63.5 + - - +
107F HIS* 3.2 3.1 + - - +
108F CYS* 3.0 27.3 + - - -
120F LEU* 3.5 23.8 - - + -
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Residues in contact with ILE 105 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101F LEU 2.9 23.6 + - - +
102F ARG 3.1 4.5 + - - +
104F ALA* 1.3 76.2 - - - +
106F VAL* 1.3 64.7 + - - +
108F CYS* 3.3 7.1 + - - +
109F GLU* 3.1 21.3 + - - +
117F ARG* 3.7 34.6 + - + +
120F LEU* 3.7 23.6 - - + +
121F LYS* 4.0 22.7 - - + +
124F LEU* 4.1 17.3 - - + -
114G TYR* 3.6 41.5 - - + -
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Residues in contact with VAL 106 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102F ARG 2.9 17.0 + - - +
103F GLU* 3.4 11.7 - - - +
105F ILE* 1.3 76.4 - - - +
107F HIS* 1.3 64.1 + - - +
109F GLU* 3.4 7.3 + - - +
110F GLN* 3.2 23.9 + - + +
112G HIS* 3.4 30.7 - - + +
114G TYR* 3.1 22.0 - - - +
----------------------------------------------------------
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Residues in contact with HIS 107 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4F ASP* 2.8 23.3 + - - -
6F LYS* 3.2 22.7 - - + +
7F VAL* 3.6 30.3 - - + -
10F HIS* 3.6 28.8 + + + +
103F GLU 3.2 5.1 + - - +
104F ALA 3.2 4.2 + - - +
106F VAL* 1.3 81.9 - - - +
108F CYS* 1.3 62.8 + - - +
110F GLN* 3.4 24.3 + - - +
111F VAL* 3.2 37.1 + - + +
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Residues in contact with CYS 108 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7F VAL* 4.2 18.6 - - - -
10F HIS* 6.0 1.8 - - - -
11F LEU* 5.6 0.9 - - - -
104F ALA* 3.0 25.0 + - - +
105F ILE 3.8 4.3 - - - +
107F HIS* 1.3 73.1 - - - +
109F GLU* 1.3 57.6 + - - +
111F VAL* 3.4 8.0 + - - -
112F HIS* 3.0 8.5 + - - -
113F ASP* 2.8 45.3 + - + +
116F SER* 3.8 24.9 - - - -
117F ARG* 4.0 13.0 - - + -
120F LEU* 4.3 13.0 - - - -
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Residues in contact with GLU 109 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105F ILE 3.1 11.9 + - - +
106F VAL* 3.5 11.9 - - - +
108F CYS* 1.3 73.1 - - - +
110F GLN* 1.3 65.8 + - - +
112F HIS* 2.9 23.0 + - - -
114F TYR* 3.6 22.0 + - - -
117F ARG* 2.9 41.8 + - - +
109G GLU* 4.2 6.4 - - - +
109J GLU* 4.2 9.4 - - - +
117J ARG* 2.7 29.3 + - - -
----------------------------------------------------------
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Residues in contact with GLN 110 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106F VAL* 3.2 13.7 + - + +
107F HIS* 3.6 25.9 + - - +
109F GLU* 1.3 79.5 - - - +
111F VAL* 1.3 71.2 + - - +
112F HIS* 3.4 14.9 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4F ASP* 3.8 20.9 - - + +
7F VAL* 3.7 25.4 - - + -
107F HIS* 3.2 39.7 + - + +
108F CYS 3.7 6.3 - - - +
110F GLN* 1.3 86.4 - - - +
112F HIS* 1.3 70.6 + - - +
113F ASP* 3.2 7.2 + - + +
102J ARG* 5.5 1.0 - - - -
----------------------------------------------------------
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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