Contacts of the helix formed by residues 83 - 111 (chain G) in PDB entry 1BCF
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 VAL 83 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G PHE* 3.6 24.0 - - + -
35G TRP* 4.4 8.5 - - + -
37G LEU* 5.1 6.1 - - + -
40G LEU* 4.0 13.9 - - + -
82G ASP* 1.3 70.7 - - + +
84G GLU* 1.3 58.3 + - - +
86G MET* 3.5 13.1 - - - +
87G LEU* 2.9 49.1 + - + +
141G ILE* 4.6 2.2 - - + -
146G LEU* 4.7 9.0 - - + -
149G TYR* 4.3 10.5 - - + -
150G LEU* 4.2 23.8 - - + -
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Residues in contact with GLU 84 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G ASP* 3.3 9.3 - - - +
83G VAL* 1.3 79.7 - - - +
85G GLU* 1.3 60.8 + - - +
88G ARG* 2.8 68.9 + - - +
138G LEU* 3.7 12.3 - - + +
141G ILE* 3.8 38.4 - - + +
142G GLN* 6.1 0.3 - - - +
146G LEU* 5.5 4.5 - - + +
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Residues in contact with GLU 85 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G ASN* 5.3 4.4 + - - +
80G GLY* 3.3 15.1 - - - -
81G GLU* 3.2 21.5 + - - +
82G ASP* 2.7 46.9 + - - +
84G GLU* 1.3 77.1 + - - +
86G MET* 1.3 62.1 + - - +
88G ARG* 3.3 8.7 + - - +
89G SER* 3.2 25.7 + - - +
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Residues in contact with MET 86 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G HIS* 3.4 41.6 + - + +
31G MET* 3.8 33.0 - - + -
32G PHE* 3.6 26.0 - - + -
35G TRP* 3.5 28.9 - - + -
79G ILE 3.7 9.6 - - - +
80G GLY 3.6 22.0 - - - +
82G ASP 2.8 20.9 + - - +
83G VAL* 3.5 8.7 - - - +
85G GLU* 1.3 75.0 - - - +
87G LEU* 1.3 61.8 + - - +
89G SER* 3.2 2.9 + - - -
90G ASP* 3.1 18.7 + - - +
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Residues in contact with LEU 87 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G PHE* 3.6 32.1 - - + -
40G LEU* 4.9 6.3 - - + -
44G GLU* 5.0 2.9 - - - +
83G VAL* 2.9 32.0 + - + +
84G GLU 4.0 4.5 - - - +
86G MET* 1.3 76.3 - - - +
88G ARG* 1.3 57.5 + - - +
90G ASP* 3.3 9.6 - - - +
91G LEU* 3.0 24.3 + - - +
133G TRP* 5.0 6.5 - - + -
134G LEU* 3.5 25.3 - - + +
137G GLU* 4.1 15.3 - - + -
138G LEU* 4.2 14.8 - - + +
141G ILE* 4.0 19.7 - - + -
149G TYR* 4.0 13.9 - - - +
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Residues in contact with ARG 88 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G GLU* 2.8 51.6 + - - +
85G GLU* 3.3 8.4 + - - +
86G MET 3.3 0.8 - - - -
87G LEU* 1.3 73.4 - - - +
89G SER* 1.3 60.6 + - - +
91G LEU* 3.4 6.2 + - + +
92G ALA* 3.0 29.3 + - - +
138G LEU* 3.5 37.3 + - + +
142G GLN* 6.3 0.2 - - - +
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Residues in contact with SER 89 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G GLN* 3.3 8.9 - - - +
28G HIS* 4.4 0.2 - - - -
78G ASN* 2.9 49.4 + - - +
79G ILE 3.8 5.8 + - - -
80G GLY* 4.9 0.3 - - - -
85G GLU* 3.2 15.5 + - - +
86G MET 3.2 8.0 + - - -
88G ARG* 1.3 71.7 - - - +
90G ASP* 1.3 66.5 + - - +
92G ALA* 3.2 6.8 + - - +
93G LEU* 3.0 24.9 + - - +
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Residues in contact with ASP 90 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G GLN* 3.2 15.0 - - - +
25G TYR* 3.7 16.1 + - + -
28G HIS* 2.9 23.0 - - - -
44G GLU* 2.7 35.7 - - - +
86G MET 3.1 9.0 + - - +
87G LEU* 3.3 12.5 - - - +
89G SER* 1.3 80.0 - - - +
91G LEU* 1.3 59.8 + - - +
93G LEU* 3.6 6.2 + - - +
94G GLU* 3.1 27.9 + - - +
134G LEU* 3.7 18.1 - - + +
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Residues in contact with LEU 91 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87G LEU 3.0 14.0 + - - +
88G ARG* 3.6 10.5 - - + +
89G SER 3.2 0.2 - - - -
90G ASP* 1.3 74.7 - - - +
92G ALA* 1.3 59.6 + - - +
94G GLU* 3.2 4.9 + - - +
95G LEU* 2.9 44.9 + - + +
131G ILE* 4.0 40.4 - - + +
134G LEU* 3.8 13.7 - - + +
135G GLU* 4.2 22.2 - - + +
138G LEU* 3.9 22.2 - - + -
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Residues in contact with ALA 92 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88G ARG 3.0 16.6 + - - +
89G SER* 3.6 6.3 - - - +
91G LEU* 1.3 73.2 - - - +
93G LEU* 1.3 66.4 + - - +
95G LEU* 3.3 12.0 + - - +
96G ASP* 3.0 30.3 + - - +
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Residues in contact with LEU 93 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17G ASN* 5.3 2.7 - - + +
20G VAL* 4.2 24.7 - - + -
21G ALA* 4.0 31.4 - - + -
24G GLN* 3.7 33.0 - - + +
25G TYR* 6.3 2.0 - - + -
76G LYS 5.3 2.7 - - - +
89G SER 3.0 14.8 + - - +
90G ASP* 3.7 7.0 - - - +
92G ALA* 1.3 77.2 - - - +
94G GLU* 1.3 61.6 + - + +
96G ASP* 3.1 11.9 + - + +
97G GLY* 3.1 19.6 + - - -
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Residues in contact with GLU 94 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21G ALA* 5.4 2.4 - - - +
25G TYR* 3.1 20.4 + - + +
51G GLU* 3.1 4.9 - - - +
90G ASP 3.1 15.9 + - - +
91G LEU* 3.4 9.2 - - - +
93G LEU* 1.3 79.2 - - + +
95G LEU* 1.3 57.4 - - - +
97G GLY* 3.5 2.0 + - - +
98G ALA* 3.0 29.3 + - - +
127G GLU* 3.1 27.1 - - - +
130G HIS* 3.6 9.6 - - + -
131G ILE* 3.6 17.1 - - + +
134G LEU* 4.1 8.3 - - + -
600G MN 2.0 37.1 + - - -
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Residues in contact with LEU 95 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91G LEU* 2.9 32.7 + - + +
92G ALA* 3.4 12.1 - - - +
94G GLU* 1.3 75.8 - - - +
96G ASP* 1.3 67.8 + - - +
98G ALA* 3.4 4.3 + - + +
99G LYS* 3.2 20.4 + - - +
131G ILE* 3.7 35.2 - - + -
135G GLU* 5.6 1.6 - - - +
1J MET* 5.1 11.4 - - + -
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Residues in contact with ASP 96 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G ALA* 3.0 21.9 + - - +
93G LEU* 3.6 13.2 - - + +
95G LEU* 1.3 77.0 - - - +
97G GLY* 1.3 63.4 + - - +
99G LYS* 3.2 35.2 + - - +
100G ASN* 3.2 14.8 + - - +
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Residues in contact with GLY 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G LEU* 5.2 0.7 - - - +
17G ASN* 4.0 25.6 - - - +
93G LEU 3.1 10.6 + - - -
94G GLU* 3.9 2.7 - - - -
95G LEU 3.3 0.2 - - - -
96G ASP* 1.3 79.5 - - - +
98G ALA* 1.3 61.2 + - - +
100G ASN* 3.0 5.9 + - - +
101G LEU* 2.9 26.7 + - - +
127G GLU* 6.1 0.7 - - - -
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Residues in contact with ALA 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94G GLU 3.0 18.0 + - - +
95G LEU* 3.7 6.5 - - + +
97G GLY* 1.3 74.8 - - - +
99G LYS* 1.3 62.4 + - - +
101G LEU* 3.1 12.7 + - - +
102G ARG* 3.0 47.0 + - - +
124G LEU* 4.0 13.8 - - + +
127G GLU* 5.2 5.0 - - + +
128G GLU* 5.6 0.9 - - + -
131G ILE* 4.4 15.7 - - + -
1J MET* 6.2 0.4 - - - -
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Residues in contact with LYS 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G LEU 3.2 10.2 + - - +
96G ASP* 3.2 29.8 + - - +
98G ALA* 1.3 80.2 - - - +
100G ASN* 1.3 68.7 + - - +
102G ARG* 3.5 11.2 + - - +
103G GLU* 3.4 20.8 + - - +
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Residues in contact with ASN 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10G TYR* 4.9 1.9 - - - -
13G LYS* 3.8 28.3 + - + +
14G LEU* 3.6 17.8 - - + +
17G ASN* 2.6 31.5 + - - +
96G ASP* 3.2 13.2 + - - +
97G GLY* 3.0 8.3 + - - +
99G LYS* 1.3 82.6 - - - +
101G LEU* 1.3 65.8 + - - +
103G GLU* 3.3 16.4 + - - +
104G ALA* 3.1 24.4 + - - +
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Residues in contact with LEU 101 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G LEU* 4.3 10.5 - - + +
58G TYR* 3.8 21.3 - - - +
97G GLY 2.9 11.2 + - - +
98G ALA* 3.2 15.0 - - - +
100G ASN* 1.3 76.5 - - - +
102G ARG* 1.3 57.5 + - - +
104G ALA* 3.3 5.1 + - - +
105G ILE* 2.9 36.5 + - + +
120G MET* 3.6 35.4 - - + +
123G ILE* 4.4 4.9 - - + -
124G LEU* 3.6 40.8 - - + +
127G GLU* 3.8 17.9 - - + -
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Residues in contact with ARG 102 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98G ALA* 3.0 36.7 + - - +
99G LYS* 3.8 10.0 - - - +
100G ASN 3.3 0.2 - - - -
101G LEU* 1.3 73.6 - - - +
103G GLU* 1.3 62.4 + - - +
105G ILE* 3.4 3.0 + - - -
106G GLY* 3.2 19.2 + - - -
124G LEU* 4.2 19.4 - - + +
128G GLU* 2.6 30.3 + - - +
1J MET* 4.4 16.5 - - - +
112J HIS* 3.3 38.8 + - + -
113J ASP* 4.5 13.7 + - - +
114J TYR* 3.8 22.9 + - + +
115J VAL* 5.5 0.4 - - - +
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Residues in contact with GLU 103 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10G TYR* 2.9 34.6 + - + +
13G LYS* 6.1 1.3 - - - +
99G LYS* 3.4 11.3 + - - +
100G ASN* 3.3 19.2 + - - +
102G ARG* 1.3 78.7 - - - +
104G ALA* 1.3 62.8 + - - +
106G GLY* 3.5 1.0 + - - -
107G TYR* 3.3 21.3 + - - +
112J HIS* 6.3 0.2 - - - -
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Residues in contact with ALA 104 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10G TYR* 3.8 31.0 - - + -
14G LEU* 3.7 26.0 - - + -
100G ASN 3.1 15.7 + - - +
101G LEU 3.6 4.3 - - - +
103G GLU* 1.3 78.2 - - - +
105G ILE* 1.3 60.6 + - - +
107G TYR* 3.4 2.8 + - - +
108G ALA* 3.1 19.1 + - - +
120G MET* 3.8 15.7 - - - +
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Residues in contact with ILE 105 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G LEU* 2.9 24.0 + - + +
102G ARG 3.9 0.2 - - - +
103G GLU 3.4 0.2 - - - -
104G ALA* 1.3 72.5 - - - +
106G GLY* 1.3 65.5 + - - +
108G ALA 3.6 0.9 + - - -
109G ASP 3.5 8.3 + - - -
117G ARG* 3.3 46.8 + - + +
120G MET* 3.7 30.5 - - + +
121G ILE* 3.8 30.5 - - + +
124G LEU* 3.8 26.9 - - + -
114J TYR* 3.8 25.4 - - + -
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Residues in contact with GLY 106 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102G ARG 3.2 12.4 + - - -
103G GLU 4.1 1.6 - - - -
105G ILE* 1.3 77.5 - - - +
107G TYR* 1.3 61.4 - - - +
109G ASP* 3.4 5.9 + - - +
110G SER* 3.2 22.3 + - - -
117G ARG* 4.2 4.9 - - - -
112J HIS* 5.3 2.5 - - - -
114J TYR* 3.5 19.2 + - - -
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Residues in contact with TYR 107 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4G ASP* 3.2 17.3 + - - -
6G LYS* 3.1 54.1 - - + +
7G VAL* 3.7 14.6 - - + -
10G TYR* 3.9 26.0 - + + +
103G GLU 3.3 16.2 + - - +
104G ALA 3.8 3.6 - - - +
105G ILE 3.3 0.4 - - - -
106G GLY* 1.3 75.2 - - - +
108G ALA* 1.3 67.0 + - - +
109G ASP 3.1 0.2 - - - -
110G SER* 3.0 23.7 + - - -
111G VAL* 3.0 27.9 + - + +
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Residues in contact with ALA 108 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7G VAL* 4.6 5.6 - - + -
104G ALA 3.1 16.2 + - - +
105G ILE 4.0 0.4 - - - +
106G GLY 3.5 0.2 - - - -
107G TYR* 1.3 77.9 - - - +
109G ASP* 1.3 57.4 + - - +
111G VAL* 3.3 10.2 + - - -
112G HIS 2.8 9.5 + - - -
113G ASP* 2.8 52.3 + - + +
116G SER* 4.7 2.0 - - - -
117G ARG* 3.7 15.9 - - + +
120G MET* 4.1 12.3 - - + -
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Residues in contact with ASP 109 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109F ASP* 5.5 1.9 - - - +
117F ARG* 3.4 22.7 + - - -
105G ILE 3.5 2.6 + - - -
106G GLY 3.4 7.8 + - - +
107G TYR 3.1 0.8 - - - -
108G ALA* 1.3 77.5 - - - +
110G SER* 1.3 64.4 + - - +
112G HIS* 2.9 19.8 + - - -
114G TYR* 3.4 29.2 + - - -
117G ARG* 3.2 40.8 + - - +
109J ASP* 5.4 3.0 - - - +
----------------------------------------------------------
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Residues in contact with SER 110 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106G GLY 3.2 13.0 + - - -
107G TYR* 3.0 21.6 + - - -
109G ASP* 1.3 80.8 + - - +
111G VAL* 1.3 60.1 + - - +
112G HIS* 3.6 15.9 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4G ASP* 3.2 29.8 - - + +
7G VAL* 3.5 29.6 - - + -
107G TYR* 3.0 26.3 + - + +
108G ALA* 3.5 11.0 - - - +
110G SER* 1.3 79.2 - - - +
112G HIS* 1.3 70.2 + - - +
113G ASP* 3.6 8.5 + - + +
----------------------------------------------------------
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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