Contacts of the helix formed by residues 85 - 114 (chain G) in PDB entry 4Z2M
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 GLN 85 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G PHE* 1.3 73.7 - - - +
86G SER* 1.3 58.3 + - - +
87G SER* 3.5 19.8 + - - +
88G ALA* 2.7 22.4 + - - +
89G VAL* 2.9 12.1 + - - +
80H THR* 4.3 16.4 - - + +
81H VAL 3.1 17.0 + - - +
82H THR* 3.4 36.9 - - - +
83H ALA 3.8 0.9 + - - -
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Residues in contact with SER 86 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G PHE 3.7 2.6 + - - -
85G GLN* 1.3 70.9 - - - +
87G SER* 1.3 56.7 + - - +
89G VAL* 3.1 9.2 + - - +
90G MET* 2.8 38.0 + - - +
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Residues in contact with SER 87 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85G GLN* 3.5 22.2 + - - +
86G SER* 1.3 77.0 - - - +
88G ALA* 1.3 59.5 + - - +
90G MET* 3.8 6.7 - - - +
91G ALA* 2.9 29.1 + - - +
83H ALA* 3.7 18.8 - - - +
----------------------------------------------------------
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Residues in contact with ALA 88 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G PHE* 4.3 4.7 - - + -
85G GLN* 2.7 18.0 + - + +
87G SER* 1.3 75.4 + - - +
89G VAL* 1.3 64.5 + - - +
91G ALA* 3.3 2.9 + - - +
92G LEU* 3.1 30.0 + - - +
81H VAL* 3.3 35.4 - - + +
82H THR 3.8 5.2 - - - +
83H ALA* 3.8 18.6 - - - +
86H VAL* 3.7 5.6 - - + +
----------------------------------------------------------
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Residues in contact with VAL 89 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64G LYS 5.6 0.4 - - - +
67G PHE* 3.9 18.7 - - + -
68G GLN* 4.6 27.6 - - + +
71G VAL* 4.4 17.3 - - + -
72G ARG* 6.2 1.8 - - + +
84G PHE* 3.8 29.4 - - + +
85G GLN 2.9 11.0 + - - +
86G SER* 3.7 8.7 - - - +
88G ALA* 1.3 76.6 - - - +
90G MET* 1.3 77.9 + - + +
92G LEU* 3.3 8.8 + - - +
93G GLN* 2.9 21.3 + - - +
----------------------------------------------------------
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Residues in contact with MET 90 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G LEU* 4.0 26.5 - - - -
64G LYS* 4.0 31.9 - - + +
86G SER* 2.8 24.6 + - - +
87G SER* 3.9 7.4 - - - +
89G VAL* 1.3 89.5 - - + +
91G ALA* 1.3 58.2 + - - +
93G GLN* 3.7 20.5 - - - +
94G GLU* 2.8 45.9 + - - +
----------------------------------------------------------
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Residues in contact with ALA 91 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87G SER 2.9 18.5 + - - +
88G ALA* 3.6 3.4 - - - +
89G VAL 3.2 0.2 - - - -
90G MET* 1.3 76.1 - - - +
92G LEU* 1.3 57.6 + - - +
94G GLU* 3.2 14.4 + - - +
95G ALA* 2.8 30.8 + - - +
83H ALA* 4.8 9.0 - - + +
86H VAL* 3.5 26.6 - - + +
87H VAL* 4.9 7.9 - - + -
90H LEU* 5.1 1.8 - - + +
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Residues in contact with LEU 92 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G PHE* 3.9 12.6 - - + -
71G VAL* 4.1 28.3 - - + -
84G PHE* 4.3 13.5 - - + -
88G ALA 3.1 16.8 + - - +
89G VAL* 3.5 9.2 - - - +
91G ALA* 1.3 75.3 - - - +
93G GLN* 1.3 57.3 + - - +
95G ALA* 3.2 6.7 + - + +
96G CYS* 2.8 34.0 + - - -
62H LEU* 4.3 10.1 - - + -
65H VAL* 3.8 26.0 - - + -
66H ILE* 4.2 18.2 - - + +
86H VAL* 3.7 25.6 - - + -
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Residues in contact with GLN 93 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G LEU* 3.5 24.7 - - + +
62G ILE* 3.0 30.5 + - + -
64G LYS* 3.8 10.3 - - - +
67G PHE* 3.5 48.2 - - + +
89G VAL 2.9 14.2 + - - +
90G MET* 3.7 21.1 - - - +
92G LEU* 1.3 73.5 - - - +
94G GLU* 1.3 66.1 + - - +
96G CYS* 3.3 0.9 + - - +
97G GLU* 3.1 45.0 + - + +
----------------------------------------------------------
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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
----------------------------------------------------------
58G THR* 5.0 18.9 - - - +
60G LEU* 4.2 24.1 - - + +
90G MET* 2.8 32.9 + - - +
91G ALA* 3.7 11.5 - - - +
93G GLN* 1.3 72.9 - - - +
95G ALA* 1.3 62.9 + - - +
97G GLU* 4.2 3.1 - - - +
98G ALA* 3.2 23.6 + - - +
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Residues in contact with ALA 95 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91G ALA 2.8 17.8 + - - +
92G LEU* 3.5 7.9 - - + +
94G GLU* 1.3 76.8 - - - +
96G CYS* 1.3 58.2 + - - +
98G ALA* 3.0 8.5 + - - +
99G TYR* 2.8 27.5 + - - +
61H PHE* 4.3 10.2 - - + -
65H VAL* 5.8 0.2 - - + -
90H LEU* 3.8 37.5 - - + -
----------------------------------------------------------
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Residues in contact with CYS 96 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62G ILE* 5.4 1.6 - - + -
67G PHE* 3.8 15.0 - - + -
92G LEU* 2.8 22.8 + - - +
93G GLN 3.3 3.6 + - - +
95G ALA* 1.3 72.9 - - - +
97G GLU* 1.3 64.0 + - + +
99G TYR* 3.1 3.3 + - - +
100G LEU* 2.9 29.3 + - - +
58H LEU* 3.7 27.1 - - + -
61H PHE* 3.9 20.9 - - - -
62H LEU* 3.6 29.4 - - - -
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Residues in contact with GLU 97 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G LEU* 3.1 22.4 + - - +
61G LEU* 3.1 26.4 + - - +
62G ILE* 2.8 46.4 + - + +
93G GLN* 3.1 31.3 + - + +
94G GLU* 4.4 3.1 - - - +
96G CYS* 1.3 78.7 - - - +
98G ALA* 1.3 57.2 + - - +
100G LEU* 4.5 1.8 - - - -
101G VAL* 3.0 37.3 + - + +
37H LEU* 3.7 16.7 - - + +
40H ARG* 5.5 1.0 + - - -
----------------------------------------------------------
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Residues in contact with ALA 98 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94G GLU 3.2 15.2 + - - +
95G ALA* 3.0 11.3 + - - +
97G GLU* 1.3 77.0 - - - +
99G TYR* 1.3 64.7 + - - +
101G VAL* 3.5 4.9 + - - +
102G GLY* 3.1 20.8 + - - -
----------------------------------------------------------
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Residues in contact with TYR 99 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G ALA 2.8 11.7 + - - +
96G CYS 3.1 6.7 + - - +
98G ALA* 1.3 76.0 - - - +
100G LEU* 1.3 72.7 + - + +
102G GLY* 3.9 0.8 - - - -
103G LEU* 2.9 42.6 + - + +
128G ARG* 2.9 13.3 + - - -
131G ARG* 3.8 12.2 + - - +
133G GLU* 2.2 44.6 + - - -
57H VAL* 3.5 29.5 + - + +
58H LEU* 5.1 1.6 - - + -
61H PHE* 3.4 56.6 - + + +
----------------------------------------------------------
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Residues in contact with LEU 100 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62G ILE* 4.9 4.5 - - + -
96G CYS 2.9 19.5 + - - +
97G GLU 3.9 3.6 - - - +
99G TYR* 1.3 94.2 - - + +
101G VAL* 1.3 61.7 + - - +
103G LEU* 3.3 7.2 + - + +
104G PHE* 2.8 46.0 + - + -
29H ILE* 5.9 1.1 - - + -
34H ILE* 5.9 0.7 - - + -
37H LEU* 3.9 28.3 - - + -
54H THR* 4.3 24.0 - - + -
57H VAL* 4.3 13.9 - - + -
58H LEU* 4.1 33.0 - - + -
----------------------------------------------------------
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Residues in contact with VAL 101 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G LEU* 5.1 0.7 - - + -
97G GLU* 3.0 21.6 + - + +
98G ALA* 3.9 5.2 - - - +
100G LEU* 1.3 75.6 - - - +
102G GLY* 1.3 59.1 + - - +
104G PHE* 3.0 23.9 + - - +
105G GLU* 3.1 24.2 + - - +
37H LEU* 3.9 26.5 - - + +
40H ARG* 3.9 34.3 - - + +
41H GLY* 4.0 12.8 - - - +
----------------------------------------------------------
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Residues in contact with GLY 102 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98G ALA 3.1 15.3 + - - -
99G TYR* 4.0 0.7 - - - -
101G VAL* 1.3 76.6 - - - +
103G LEU* 1.3 57.2 + - - +
105G GLU* 3.1 31.6 + - - +
106G ASP* 3.1 13.7 + - - +
131G ARG* 3.3 15.7 + - - -
----------------------------------------------------------
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Residues in contact with LEU 103 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G TYR* 2.9 32.9 + - + +
100G LEU* 3.5 10.1 - - + +
102G GLY* 1.3 72.1 - - - +
104G PHE* 1.3 59.1 + - + +
106G ASP* 3.6 1.0 + - - +
107G THR* 2.5 46.3 + - - +
124G ILE* 4.5 13.7 - - + -
127G ALA* 4.3 13.9 - - + -
128G ARG* 3.8 27.6 - - + -
131G ARG* 3.2 24.5 - - - +
57H VAL* 3.4 32.8 - - + -
----------------------------------------------------------
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Residues in contact with PHE 104 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100G LEU* 2.8 40.8 + - + -
101G VAL 3.0 8.9 + - - +
103G LEU* 1.3 76.7 - - + +
105G GLU* 1.3 58.4 + - - +
107G THR* 3.7 6.2 - - - -
108G ASN* 3.0 27.0 + - - +
119G ILE* 3.8 31.4 - - + -
124G ILE* 4.7 7.6 - - + -
34H ILE* 4.2 13.2 - - + -
37H LEU* 4.1 13.0 - - + -
38H ALA* 3.8 35.2 - - + -
41H GLY* 4.1 13.3 - - - +
43H VAL* 3.7 9.3 - - + +
50H ILE* 4.2 9.9 - - + -
54H THR* 3.9 29.6 - - + -
----------------------------------------------------------
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Residues in contact with GLU 105 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G VAL* 3.1 19.3 + - - +
102G GLY* 3.1 18.9 + - - +
104G PHE* 1.3 77.4 - - - +
106G ASP* 1.3 68.8 + - - +
108G ASN* 3.2 3.6 + - - +
109G LEU* 3.0 29.1 + - + +
40H ARG 4.7 4.2 - - - +
41H GLY* 3.5 26.6 - - - +
----------------------------------------------------------
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Residues in contact with ASP 106 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102G GLY 3.1 7.8 + - - +
103G LEU 3.8 6.1 - - - +
105G GLU* 1.3 77.4 - - - +
107G THR* 1.3 62.2 + - - +
109G LEU* 3.0 27.1 + - - +
110G CYS* 3.1 15.6 + - - -
127G ALA* 3.9 18.6 - - + -
131G ARG* 2.5 38.4 + - - +
129I ARG 5.0 1.2 - - - +
130I ILE* 3.9 32.1 - - + +
----------------------------------------------------------
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Residues in contact with THR 107 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103G LEU* 2.5 29.2 + - - +
104G PHE* 3.7 9.3 - - - -
106G ASP* 1.3 74.5 - - - +
108G ASN* 1.3 63.7 + - - +
110G CYS* 3.1 13.8 + - - +
111G ALA* 3.1 10.7 + - - +
119G ILE* 3.7 25.6 - - + -
123G ASP* 3.6 31.3 - - + +
124G ILE* 3.7 34.1 - - + +
127G ALA* 4.0 1.4 - - - +
----------------------------------------------------------
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Residues in contact with ASN 108 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G PHE 3.0 19.7 + - - +
105G GLU* 3.2 6.0 + - - +
107G THR* 1.3 77.4 - - - +
109G LEU* 1.3 62.5 + - - +
111G ALA* 3.4 3.1 + - - +
112G ILE* 3.1 46.9 + - - +
116G ARG 5.7 0.3 - - - +
117G VAL* 4.4 8.3 - - - +
119G ILE* 3.9 13.1 - - - +
41H GLY 4.7 3.9 + - - +
42H GLY* 3.8 18.6 + - - +
43H VAL* 3.8 23.0 - - + +
44H LYS* 4.4 3.3 + - - +
----------------------------------------------------------
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Residues in contact with LEU 109 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105G GLU* 3.0 19.8 + - + +
106G ASP* 3.0 23.4 + - - +
108G ASN* 1.3 76.9 - - - +
110G CYS* 1.3 57.9 + - - +
112G ILE* 3.1 19.4 + - + +
113G HIS* 2.9 27.7 + - - +
126I LEU* 4.0 17.8 - - + +
129I ARG* 3.5 54.7 - - + +
130I ILE* 4.4 2.9 - - + -
----------------------------------------------------------
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Residues in contact with CYS 110 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106G ASP 3.1 16.0 + - - -
107G THR 3.3 8.7 - - - +
109G LEU* 1.3 73.9 - - - +
111G ALA* 1.3 65.3 + - - +
113G HIS* 3.0 20.3 + - - +
114G ALA 3.0 9.5 + - - -
123G ASP* 3.6 27.4 - - + +
126G LEU* 3.7 27.4 - - - -
127G ALA* 4.3 2.5 - - - -
113I HIS* 3.5 13.8 - - - +
126I LEU* 4.5 5.6 - - - -
130I ILE* 3.7 23.1 - - - -
----------------------------------------------------------
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Residues in contact with ALA 111 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107G THR 3.1 7.0 + - - +
108G ASN* 3.8 9.0 - - - +
110G CYS* 1.3 78.1 - - - +
112G ILE* 1.3 56.3 + - + +
114G ALA 3.2 1.6 + - - -
115G LYS 3.2 3.1 + - - -
116G ARG* 2.6 55.5 + - - +
117G VAL 5.0 0.4 - - - -
118G THR 3.8 10.1 - - - +
119G ILE* 4.1 11.0 - - + -
123G ASP* 3.2 27.7 + - - +
----------------------------------------------------------
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Residues in contact with ILE 112 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108G ASN* 3.1 36.5 + - - +
109G LEU* 3.1 22.0 + - + +
111G ALA* 1.3 75.4 - - - +
113G HIS* 1.3 56.1 + - - +
115G LYS* 2.6 29.1 + - - +
116G ARG 3.7 10.1 - - - +
117G VAL* 6.2 0.2 - - - -
122I LYS* 5.9 0.2 + - - -
----------------------------------------------------------
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Residues in contact with HIS 113 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G LEU 2.9 12.2 + - - +
110G CYS* 3.0 12.1 + - - +
112G ILE* 1.3 77.0 - - - +
114G ALA* 1.3 56.7 + - - +
115G LYS* 3.2 6.9 + - - +
110I CYS* 3.3 22.6 + - - +
113I HIS* 4.7 5.4 - - + -
114I ALA* 3.8 17.1 - - + +
116I ARG* 3.5 11.1 + - - -
122I LYS* 4.0 46.4 + - + +
123I ASP* 3.0 28.4 + - - -
126I LEU* 3.5 31.6 - - + +
----------------------------------------------------------
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Residues in contact with ALA 114 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110G CYS 3.0 8.3 + - - +
111G ALA 3.8 5.6 - - - +
112G ILE 3.0 1.0 - - - -
113G HIS* 1.3 76.9 - - - +
115G LYS* 1.3 72.4 + - - +
116G ARG* 3.3 38.1 + - - +
113I HIS* 3.9 23.6 - - + +
114I ALA* 4.9 3.4 - - - +
115I LYS* 6.6 0.2 - - - -
----------------------------------------------------------
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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