Contacts of the helix formed by residues 71 - 97 (chain G) in PDB entry 6BAA
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 HIS 71 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G HIS* 3.1 46.9 + + + +
68G PHE 3.2 20.6 - - - +
70G GLY* 1.3 75.2 - - - +
72G ASN* 1.3 92.5 + - - +
73G LEU 3.3 2.2 - - - -
74G ARG* 3.2 8.5 - - - +
75G TRP* 3.0 47.5 + + - -
124G TYR* 3.3 27.8 - - + +
128G GLU* 3.6 8.5 + - - +
222G VAL 4.4 4.9 - - - -
224G LEU 5.4 0.9 - - - -
227G LYS* 5.9 1.6 - - - -
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Residues in contact with ASN 72 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G GLY* 3.8 1.1 - - - -
71G HIS* 1.3 105.8 + - - +
73G LEU* 1.3 62.8 + - - +
75G TRP* 3.1 11.0 + - - +
76G ILE* 3.0 26.4 + - + +
224G LEU* 4.0 20.8 - - + +
227G LYS* 5.4 9.1 - - - +
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Residues in contact with LEU 73 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G GLY* 3.3 37.5 - - - +
72G ASN* 1.3 75.7 - - + +
74G ARG* 1.3 61.1 + - - +
76G ILE* 3.4 15.9 - - + +
77G LEU* 2.9 38.2 + - + +
181G MET* 4.8 12.1 - - + -
185G VAL* 3.8 30.3 - - + -
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Residues in contact with ARG 74 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G GLY 4.6 2.9 + - - +
71G HIS* 3.2 20.1 - - - +
73G LEU* 1.3 83.0 - - - +
75G TRP* 1.3 64.6 + - + +
77G LEU* 3.9 5.8 - - - +
78G THR* 3.0 38.3 + - + +
121G VAL* 5.5 2.5 - - + -
124G TYR* 3.3 57.5 + - + +
136G LEU* 5.9 1.0 - - - +
139G LEU* 4.3 15.5 - - - +
143G TRP* 5.4 6.2 - - - +
182G LEU* 4.5 16.7 + - - +
185G VAL* 3.4 32.5 + - + +
186G GLU* 3.4 34.8 + - - +
189G VAL* 4.5 6.7 - - - +
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Residues in contact with TRP 75 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71G HIS* 3.0 46.9 + - - +
72G ASN* 3.1 9.4 + - - +
74G ARG* 1.3 77.3 - - + +
76G ILE* 1.3 57.7 + - - +
78G THR* 2.3 28.6 + - - -
79G PHE* 3.0 21.8 + + + -
121G VAL* 3.6 31.4 - - + -
124G TYR* 4.6 9.6 - + - -
125G HIS* 4.0 25.1 - + + -
128G GLU* 4.0 17.4 + - - -
223G ASN* 3.6 26.6 - - + +
224G LEU* 3.7 39.2 - - + +
225G LEU* 3.6 29.4 - - + -
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Residues in contact with ILE 76 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72G ASN* 3.0 14.2 + - + +
73G LEU* 3.4 20.9 - - + +
75G TRP* 1.3 76.7 - - - +
77G LEU* 1.3 74.5 + - + +
79G PHE* 3.2 10.8 + - + +
80G ILE* 3.0 38.5 + - + +
224G LEU* 4.2 23.1 - - + -
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Residues in contact with LEU 77 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73G LEU* 2.9 27.7 + - + +
74G ARG* 3.9 4.3 - - - +
76G ILE* 1.3 87.1 - - + +
78G THR* 1.3 60.3 + - + +
80G ILE* 3.4 12.0 + - + +
81G LEU* 2.9 34.5 + - - +
178G LEU* 3.7 24.4 - - + +
181G MET* 3.6 41.7 - - + -
182G LEU* 3.8 31.4 - - + +
185G VAL* 4.6 5.2 - - + -
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Residues in contact with THR 78 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74G ARG* 3.0 25.9 + - - +
75G TRP* 2.3 35.0 + - - -
77G LEU* 1.3 76.9 - - + +
79G PHE* 1.3 63.0 + - - +
81G LEU* 3.4 16.2 - - + +
82G LEU* 2.9 37.0 + - + +
117G ALA* 5.4 1.1 - - + +
120G SER* 5.2 6.5 - - - +
121G VAL* 3.8 34.3 - - + +
143G TRP* 5.7 6.1 - - + -
182G LEU* 6.1 2.0 - - + -
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Residues in contact with PHE 79 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G TRP* 3.0 35.1 + + + -
76G ILE* 3.2 13.2 + - + +
78G THR* 1.3 78.3 + - - +
80G ILE* 1.3 61.2 + - + +
82G LEU* 3.2 14.8 + - + +
83G PHE* 3.0 25.0 + - - +
224G LEU* 3.7 27.6 - - + -
225G LEU* 3.6 38.8 - - + -
368G LEU* 5.9 11.9 - - + -
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Residues in contact with ILE 80 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76G ILE* 3.0 22.8 + - + +
77G LEU* 3.5 14.1 - - + +
79G PHE* 1.3 78.2 - - + +
81G LEU* 1.3 62.5 + - - +
83G PHE* 3.3 12.7 - - + +
84G VAL* 3.0 35.4 + - + +
174G LEU* 6.1 0.7 - - + -
178G LEU* 3.6 38.1 - - + -
368G LEU* 6.2 3.8 - - + -
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Residues in contact with LEU 81 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77G LEU 2.9 24.5 + - - +
78G THR* 3.4 20.6 - - + +
80G ILE* 1.3 78.1 - - - +
82G LEU* 1.3 63.7 + - + +
84G VAL* 3.3 12.2 - - + +
85G LEU* 2.8 42.1 + - + +
117G ALA* 3.7 29.4 - - + -
143G TRP* 4.8 7.9 - - + -
175G LEU* 6.0 2.7 - - + -
178G LEU* 4.9 11.2 - - + -
179G TYR* 4.3 22.4 - - + +
182G LEU* 3.7 29.2 - - + -
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Residues in contact with LEU 82 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G THR* 2.9 28.4 + - - +
79G PHE* 3.5 17.9 - - + +
81G LEU* 1.3 77.8 - - + +
83G PHE* 1.3 61.4 + - - +
85G LEU* 3.3 6.1 + - - +
86G VAL* 3.0 30.4 + - + +
114G PHE* 3.9 22.8 - - + -
117G ALA* 3.4 37.9 - - + -
118G ILE* 4.0 23.3 - - + +
121G VAL* 6.1 1.8 - - + -
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Residues in contact with PHE 83 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79G PHE 3.0 13.6 + - - +
80G ILE* 3.3 17.0 - - + +
81G LEU 3.2 0.2 - - - -
82G LEU* 1.3 77.6 - - - +
84G VAL* 1.3 76.2 + - + +
86G VAL* 3.3 4.7 + - - +
87G CYS* 3.1 33.1 + - - -
361G LEU* 3.9 30.7 - - + -
364G LEU* 3.6 36.1 - - + +
368G LEU* 5.5 9.9 - - + -
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Residues in contact with VAL 84 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G ILE* 3.0 21.3 + - + +
81G LEU* 3.3 20.0 - - + +
83G PHE* 1.3 86.5 - - + +
85G LEU* 1.3 65.3 + - + +
87G CYS* 3.0 11.3 + - + +
88G GLU* 2.8 42.7 + - - +
171G LEU* 5.7 4.0 - - + -
174G LEU* 3.7 32.1 - - + -
175G LEU* 4.5 13.0 - - + -
178G LEU* 5.8 1.8 - - + -
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Residues in contact with LEU 85 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81G LEU* 2.8 36.0 + - + +
82G LEU* 3.6 7.2 - - - +
84G VAL* 1.3 78.6 - - + +
86G VAL* 1.3 58.5 + - - +
88G GLU* 2.9 21.0 + - + +
89G ILE* 2.8 33.2 + - + +
110G ALA* 4.2 11.0 - - + +
113G ALA* 3.4 22.0 - - + +
114G PHE* 3.4 41.5 - - + +
117G ALA* 4.7 0.7 - - + -
175G LEU* 3.6 24.9 - - + -
179G TYR* 4.8 3.6 - - - +
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Residues in contact with VAL 86 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G LEU 3.0 16.5 + - - +
83G PHE 3.5 8.1 - - - +
85G LEU* 1.3 74.2 - - - +
87G CYS* 1.3 64.3 + - - +
89G ILE* 3.3 12.0 + - + +
90G ALA* 3.0 21.5 + - - +
114G PHE* 4.5 20.9 - - + -
360G VAL* 3.6 31.0 - - + -
361G LEU* 5.9 2.2 - - + -
364G LEU* 4.3 16.6 - - + -
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Residues in contact with CYS 87 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83G PHE* 3.1 33.6 + - - -
84G VAL* 3.0 16.2 + - + +
86G VAL* 1.3 77.0 - - - +
88G GLU* 1.3 58.9 + - - +
90G ALA* 3.2 9.8 + - - +
91G GLU* 2.9 24.3 + - - +
171G LEU* 5.0 15.9 - - + +
361G LEU* 4.1 27.4 - - - -
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Residues in contact with GLU 88 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G VAL* 2.8 37.4 + - - +
85G LEU* 2.9 25.9 + - - +
87G CYS* 1.3 73.5 - - - +
89G ILE* 1.3 61.1 + - - +
91G GLU* 3.6 11.8 - - - +
92G GLY* 2.8 25.1 + - - -
106G LEU 5.5 0.2 - - - +
107G TYR* 5.5 0.9 - - - +
110G ALA* 4.7 14.6 - - + +
168G ARG* 5.9 3.6 - - + -
171G LEU* 3.3 50.8 - - + +
172G THR* 5.9 1.3 - - - +
174G LEU* 5.3 0.2 - - - +
175G LEU* 3.7 15.5 - - + +
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Residues in contact with ILE 89 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85G LEU 2.8 17.9 + - - +
86G VAL* 3.4 15.9 - - + +
88G GLU* 1.3 77.0 - - - +
90G ALA* 1.3 58.4 + - - +
92G GLY* 3.2 2.2 + - - -
93G ILE* 3.0 39.8 + - + +
107G TYR* 3.5 20.5 - - + +
110G ALA* 3.8 7.4 - - + +
111G GLY* 3.4 35.7 - - - +
114G PHE* 5.6 5.2 - - + -
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Residues in contact with ALA 90 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86G VAL* 3.0 13.1 + - + +
87G CYS* 3.3 13.0 - - - +
89G ILE* 1.3 79.4 - - - +
91G GLU* 1.3 55.8 + - - +
93G ILE* 3.4 6.3 + - - +
94G LEU* 2.9 30.0 + - - +
357G VAL* 4.1 31.2 - - + -
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Residues in contact with GLU 91 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87G CYS 2.9 13.5 + - - +
88G GLU* 3.3 13.8 + - - +
90G ALA* 1.3 76.5 - - - +
92G GLY* 1.3 58.7 + - - +
94G LEU* 3.4 11.1 + - + +
95G SER* 2.9 33.9 + - - +
167G LEU* 3.3 30.1 - - + +
168G ARG* 2.8 62.4 + - - +
171G LEU* 3.3 19.7 - - + +
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Residues in contact with GLY 92 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88G GLU 2.8 13.8 + - - -
89G ILE 3.2 3.5 + - - -
91G GLU* 1.3 78.3 - - - +
93G ILE* 1.3 55.9 - - - +
95G SER* 3.3 5.8 + - - -
96G ASP* 2.9 28.9 + - - +
106G LEU* 3.8 14.0 - - - +
107G TYR* 3.7 24.3 - - - +
168G ARG* 5.1 3.1 - - - +
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Residues in contact with ILE 93 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89G ILE* 3.0 27.1 + - + +
90G ALA* 3.9 5.6 - - - +
92G GLY* 1.3 73.0 - - - +
94G LEU* 1.3 60.0 + - - +
96G ASP* 3.3 5.8 + - + +
97G GLY* 2.9 26.0 + - - -
107G TYR* 3.7 38.8 - - + -
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Residues in contact with LEU 94 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90G ALA 2.9 17.0 + - - +
91G GLU* 3.6 12.6 - - + +
93G ILE* 1.3 78.3 - - - +
95G SER* 1.3 66.0 + - - +
97G GLY* 3.3 13.4 + - - -
98G VAL* 4.5 1.2 + - - +
354G ASN* 6.0 7.6 - - + +
357G VAL* 6.2 4.3 - - + -
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Residues in contact with SER 95 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91G GLU* 2.9 18.2 + - - +
92G GLY* 3.7 5.6 - - - -
93G ILE 3.2 0.2 - - - -
94G LEU* 1.3 79.2 - - - +
96G ASP* 1.3 65.6 + - - +
97G GLY 3.3 0.5 + - - -
98G VAL* 3.7 19.9 + - - +
103G HIS* 5.6 1.4 + - - -
106G LEU* 5.6 11.0 - - - -
168G ARG* 2.6 31.3 + - - -
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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 GLY 2.9 17.0 + - - +
93G ILE* 3.3 7.8 + - + +
95G SER* 1.3 73.1 - - - +
97G GLY* 1.3 55.5 + - - +
98G VAL* 3.1 6.0 - - - +
99G THR* 2.9 25.1 + - - +
101G SER 3.4 6.6 - - - +
102G ARG* 3.8 23.9 + - - +
103G HIS* 3.3 43.6 + - + +
106G LEU* 6.1 1.5 - - + +
107G TYR* 3.2 30.2 - - + -
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Residues in contact with GLY 97 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93G ILE 2.9 15.0 + - - -
94G LEU* 3.3 8.3 + - - -
95G SER 3.1 2.6 - - - -
96G ASP* 1.3 70.8 - - - +
98G VAL* 1.3 63.4 + - - +
99G THR* 3.2 14.6 + - - +
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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