Contacts of the helix formed by residues 89 - 118 (chain G) in PDB entry 2QJK
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 GLY 89 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87G VAL 3.0 2.6 + - - -
88G ASN* 1.3 73.2 - - - +
90G GLY* 1.3 65.8 + - - +
91G PHE* 3.3 22.4 - - - -
92G MET* 3.1 9.4 + - - +
93G LEU* 3.0 27.7 + - - +
33I PRO* 6.0 5.2 - - - -
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Residues in contact with GLY 90 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83G ILE* 3.1 33.3 - - - +
87G VAL* 2.8 19.0 + - - -
88G ASN 3.1 1.6 - - - -
89G GLY* 1.3 78.5 - - - +
91G PHE* 1.3 65.7 + - - +
93G LEU* 2.8 18.2 + - - +
94G ARG* 2.9 14.9 + - - +
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Residues in contact with PHE 91 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83G ILE 3.6 5.3 + - - -
84G MET* 3.5 35.7 + - + +
87G VAL 5.5 0.9 - - - -
89G GLY* 4.2 18.6 - - - -
90G GLY* 1.3 77.9 - - - +
92G MET* 1.3 108.3 + - + +
94G ARG* 4.0 1.4 - - - +
95G TYR* 3.3 30.2 + + + -
220H GLU* 5.6 3.4 - - - +
222H LYS* 3.5 35.9 - - + +
225H ALA* 3.8 24.5 - - + -
226H ARG* 3.7 24.2 - - + -
229H ALA* 5.4 3.4 - - + -
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Residues in contact with MET 92 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89G GLY* 3.1 10.4 + - - +
90G GLY 3.1 0.8 - - - -
91G PHE* 1.3 114.7 - - + +
93G LEU* 1.3 62.9 + - + +
95G TYR* 4.2 2.5 - - + +
96G LEU* 3.2 37.8 + - + +
264G PHE* 5.5 9.9 - - + -
267G VAL* 4.3 22.9 - - + +
268G GLY* 5.6 2.0 - - - -
226H ARG* 3.4 27.8 - - + +
229H ALA* 4.3 17.3 - - + -
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Residues in contact with LEU 93 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G THR* 4.1 25.1 - - + -
64G VAL* 3.4 30.7 - - + -
65G LEU* 4.1 15.7 - - + +
83G ILE* 6.2 0.2 - - + -
87G VAL* 5.2 1.8 - - + -
88G ASN 4.8 0.7 - - - +
89G GLY 3.0 20.2 + - - +
90G GLY* 2.8 12.0 + - - +
92G MET* 1.3 78.2 - - + +
94G ARG* 1.3 69.0 + - - +
96G LEU* 3.0 12.0 + - + +
97G HIS* 2.9 21.0 + - - +
33I PRO* 4.9 12.1 - - + +
34I LEU* 4.6 14.4 - - + -
37I GLN* 4.3 17.3 - - + -
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Residues in contact with ARG 94 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G LEU* 4.2 19.1 - - + +
77G PHE* 6.0 3.0 - - - -
80G VAL* 3.7 20.0 - - + +
81G GLU* 4.9 1.0 + - - -
83G ILE* 4.8 3.1 - - + -
84G MET* 3.4 53.6 - - + +
90G GLY 2.9 9.7 + - - +
93G LEU* 1.3 79.4 - - - +
95G TYR* 1.3 73.0 + - - +
97G HIS* 2.9 10.9 + - - +
98G ALA* 3.0 13.1 + - - +
150G PRO* 4.6 7.9 - - - +
279G ASN* 5.4 4.0 + - - +
280G TYR* 4.3 26.3 + - - -
502G HEM 3.0 54.5 + - - +
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Residues in contact with TYR 95 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G MET* 3.5 19.3 - - + -
91G PHE* 3.3 23.3 + - + +
92G MET* 4.2 2.2 - - + +
94G ARG* 1.3 85.1 - - - +
96G LEU* 1.3 62.5 + - - +
98G ALA* 4.6 4.3 - - + -
99G ASN* 2.9 34.8 + - - +
267G VAL* 3.9 16.8 - - + -
271G PRO* 3.6 24.2 - - + -
272G ASN* 3.0 28.9 + - - -
280G TYR* 3.6 7.6 - - - -
105H LYS* 3.0 19.1 + - - -
220H GLU* 2.7 30.6 + - - -
226H ARG* 3.5 25.1 - - + -
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Residues in contact with LEU 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57G LEU* 4.4 13.3 - - + +
58G GLN* 3.9 0.9 - - - +
61G THR* 4.4 13.9 - - + -
92G MET* 3.2 36.6 + - + +
93G LEU* 3.0 18.4 + - + +
95G TYR* 1.3 79.0 - - - +
97G HIS* 1.3 58.8 + - - +
99G ASN 3.9 0.2 - - - -
100G GLY* 2.8 27.7 + - - -
263G PHE* 3.4 39.0 - - + -
264G PHE* 4.2 24.2 - - + -
267G VAL* 4.0 16.8 - - + -
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Residues in contact with HIS 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G GLN* 2.8 65.5 + - - +
61G THR* 3.3 20.7 + - - +
62G GLY* 3.8 6.5 + - - -
65G LEU* 3.6 20.6 - - + -
93G LEU 2.9 5.1 + - - +
94G ARG* 2.9 8.1 + - - +
96G LEU* 1.3 76.2 - - - +
98G ALA* 1.3 65.0 + - - +
101G ALA* 3.3 2.8 + - - +
502G HEM 1.9 88.0 + + + +
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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 ARG* 3.0 16.7 + - - +
95G TYR* 3.9 7.9 - - + +
97G HIS* 1.3 73.0 - - - +
99G ASN* 1.3 60.6 + - - +
100G GLY 2.8 3.8 - - - -
101G ALA* 2.8 31.0 + - - +
102G SER* 3.5 4.2 + - - -
502G HEM 3.6 37.2 - - + +
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Residues in contact with ASN 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G TYR* 2.9 33.7 + - - +
98G ALA* 1.3 78.2 - - - +
100G GLY* 1.3 62.0 + - - +
102G SER* 3.2 10.0 + - - -
103G LEU* 3.0 23.0 + - - +
263G PHE* 3.7 19.3 - - + -
266G ILE* 4.1 13.1 - - - +
267G VAL* 4.3 10.7 - - + +
271G PRO* 3.2 42.1 + - - +
274G LEU* 4.2 16.8 - - - +
504G LOP 3.8 6.0 - - + +
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Residues in contact with GLY 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54G CYS* 4.2 3.7 - - - -
57G LEU* 4.5 6.7 - - - -
58G GLN* 3.0 22.6 - - - +
96G LEU 2.8 16.9 + - - -
98G ALA 2.8 0.6 + - - -
99G ASN* 1.3 78.2 - - - +
101G ALA* 1.3 51.4 + - - +
103G LEU* 3.3 4.4 + - - +
104G PHE* 2.7 34.8 + - - +
263G PHE* 4.1 10.7 - - - -
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Residues in contact with ALA 101 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G GLN* 3.4 0.4 + - - -
97G HIS 3.3 6.8 + - - +
98G ALA 2.8 11.9 + - - +
100G GLY* 1.3 75.6 - - - +
102G SER* 1.3 62.7 + - - +
104G PHE* 2.9 11.3 + - - +
105G PHE* 2.9 30.9 + - + -
143G ALA* 5.5 0.2 - - + -
297G TYR* 4.3 13.9 - - + +
502G HEM 3.9 44.0 - - + -
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Residues in contact with SER 102 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98G ALA 3.5 5.1 + - - -
99G ASN* 3.2 11.0 + - - -
101G ALA* 1.3 75.3 - - - +
103G LEU* 1.3 69.6 + - - +
105G PHE* 3.0 2.3 + - - -
106G ILE* 2.8 30.1 + - - +
274G LEU* 3.4 35.7 + - - +
296G TRP* 3.3 28.5 + - - -
297G TYR* 4.4 8.8 - - - -
504G LOP 4.6 1.3 - - - -
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Residues in contact with LEU 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G TRP* 6.0 1.8 - - + -
50G VAL* 4.6 13.0 - - + -
53G PHE* 4.9 11.7 - - + -
54G CYS* 3.4 22.0 - - - -
57G LEU* 5.3 1.8 - - + -
99G ASN 3.0 12.7 + - - +
100G GLY 3.5 7.4 - - - +
102G SER* 1.3 77.2 - - - +
104G PHE* 1.3 63.5 + - - +
106G ILE* 3.6 7.4 - - + +
107G ALA* 2.9 26.1 + - + +
259G VAL* 4.1 16.6 - - + -
260G LEU* 4.9 2.0 - - + -
263G PHE* 4.1 28.5 - - + -
504G LOP 3.3 45.2 - - + +
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Residues in contact with PHE 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G LEU* 3.5 32.9 - - + +
54G CYS* 3.6 19.2 - - + -
55G LEU* 4.3 27.1 - - + -
58G GLN* 4.3 7.6 - - + -
100G GLY 2.7 16.0 + - - +
101G ALA* 2.9 15.0 + - - +
103G LEU* 1.3 78.0 - - - +
105G PHE* 1.3 57.6 + + + +
107G ALA* 4.6 0.4 - - - -
108G VAL* 3.0 19.6 + - - +
139G MET* 3.5 35.0 - - + -
205G ILE* 5.3 0.9 - - + -
501G HEM 4.3 11.0 - - + -
502G HEM 3.7 43.5 - - + -
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Residues in contact with PHE 105 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G ALA* 2.9 22.1 + - + +
102G SER 3.0 4.0 + - - +
104G PHE* 1.3 73.8 - - + +
106G ILE* 1.3 68.5 + - - +
107G ALA 2.8 1.6 - - - -
108G VAL* 2.7 35.3 + - + +
109G TYR* 2.9 29.9 + + + -
136G TYR* 4.3 8.1 - + - -
139G MET* 4.0 20.0 - - + -
140G MET* 3.9 33.4 - - + -
143G ALA* 3.7 23.6 - - + -
296G TRP* 4.1 3.1 - - + -
297G TYR* 3.2 61.5 - + + -
298G PHE* 5.1 0.4 - + - -
502G HEM 5.7 2.5 - - + -
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Residues in contact with ILE 106 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G TRP* 5.7 2.0 - - + -
102G SER* 2.8 28.5 + - - +
103G LEU* 3.6 7.0 - - + +
105G PHE* 1.3 72.7 - - - +
107G ALA* 1.3 63.8 + - - +
109G TYR* 3.7 5.9 + - - +
110G LEU* 3.3 34.9 + - + +
274G LEU* 5.1 4.7 - - + -
296G TRP* 3.6 23.7 - - + -
504G LOP 3.7 61.8 - - + +
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Residues in contact with ALA 107 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G TRP* 4.3 24.4 - - + +
50G VAL* 4.5 13.9 - - + +
51G LEU* 3.5 26.5 - - + +
103G LEU* 2.9 18.2 + - + +
104G PHE* 3.5 2.0 - - - +
105G PHE 2.7 3.4 + - - -
106G ILE* 1.3 73.1 - - - +
108G VAL* 1.3 53.8 + - - +
110G LEU* 3.0 5.5 + - - +
111G HIS* 2.6 36.7 + - - +
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Residues in contact with VAL 108 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G LEU* 3.7 16.8 - - + +
104G PHE 3.0 15.4 + - - +
105G PHE* 2.7 43.6 + - + +
107G ALA* 1.3 74.6 - - - +
109G TYR* 1.3 51.2 + - + +
111G HIS* 3.3 6.1 - - - +
112G ILE* 2.5 44.6 + - + +
136G TYR* 4.6 7.4 - - + -
139G MET* 3.8 24.9 - - + -
501G HEM 3.9 26.5 - - + -
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Residues in contact with TYR 109 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105G PHE* 2.9 36.2 + + + +
106G ILE* 4.1 4.9 - - - +
108G VAL* 1.3 76.7 - - - +
110G LEU* 1.3 55.7 + - - +
112G ILE* 3.2 11.2 + - + +
113G PHE* 2.7 47.6 + + + -
136G TYR* 2.6 42.5 + + - -
140G MET* 5.0 0.7 - - - -
296G TRP* 4.3 22.4 - + - -
297G TYR* 2.9 27.4 + - - -
300G PRO* 5.1 1.7 - - + +
301G PHE* 4.0 5.2 - + - -
374G PHE* 3.7 43.7 - + + -
504G LOP 4.6 12.3 - - + -
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Residues in contact with LEU 110 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44G MET* 5.0 6.3 - - - +
47G TRP* 3.4 54.6 - - + +
106G ILE* 3.3 25.1 + - + +
107G ALA 3.0 7.2 + - - +
109G TYR* 1.3 75.4 - - - +
111G HIS* 1.3 62.8 + - - +
113G PHE* 4.2 2.4 - - - +
114G ARG* 2.9 28.3 + - - +
504G LOP 4.0 61.3 - - + +
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Residues in contact with HIS 111 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44G MET 5.7 0.6 + - - -
47G TRP* 4.2 10.0 - - + +
48G GLY* 3.8 9.4 + - - -
51G LEU* 3.4 12.1 - - + -
107G ALA 2.6 20.5 + - - +
108G VAL* 3.3 8.7 - - + +
110G LEU* 1.3 74.1 - - - +
112G ILE* 1.3 61.0 + - - +
114G ARG* 3.4 19.3 + - - +
115G GLY* 3.2 17.3 + - - -
501G HEM 2.0 123.3 + + + +
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Residues in contact with ILE 112 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108G VAL 2.5 27.0 + - - +
109G TYR* 3.6 12.8 - - + +
111G HIS* 1.3 69.2 - - - +
113G PHE* 1.3 74.1 + - + +
115G GLY* 3.0 12.3 + - - -
116G LEU* 3.0 33.0 + - + +
129G TRP* 4.2 12.1 - - + -
133G MET* 5.6 1.1 - - - -
136G TYR* 4.3 29.8 - - + -
343G MET* 4.3 24.0 - - + -
501G HEM 3.6 36.8 - - + -
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Residues in contact with PHE 113 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G TYR* 2.7 30.1 + + + +
110G LEU 4.2 0.2 - - - +
112G ILE* 1.3 75.8 - - + +
114G ARG* 1.3 66.9 + - - +
116G LEU* 3.2 18.0 + - + +
117G TYR* 3.0 25.1 + - - +
367G PHE* 3.7 17.1 - + - -
370G LEU* 4.1 26.5 - - + -
371G ALA* 4.2 11.4 - - - -
374G PHE* 3.7 55.0 - + + -
400G TRP* 4.7 7.2 - + - -
504G LOP 3.6 45.5 - - + -
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Residues in contact with ARG 114 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44G MET* 3.2 59.4 + - + +
45G TRP* 3.5 26.9 - - - -
110G LEU 2.9 20.6 + - - +
111G HIS* 3.4 17.9 + - - +
113G PHE* 1.3 77.2 - - - +
115G GLY* 1.3 76.4 + - - +
117G TYR* 3.4 1.0 + - - +
118G TYR* 3.1 37.6 + - + -
120G SER* 4.0 6.5 + - - -
501G HEM 2.6 70.9 + - - +
504G LOP 4.4 11.1 - - - +
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Residues in contact with GLY 115 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111G HIS 3.2 5.2 + - - -
112G ILE 3.0 8.2 + - - -
114G ARG* 1.3 92.7 - - - +
116G LEU* 1.3 59.7 + - - +
118G TYR 3.3 0.5 + - - -
119G GLY 3.1 5.9 + - - -
120G SER* 3.1 36.6 + - - -
121G TYR* 3.6 8.1 - - - -
129G TRP* 4.6 8.5 - - - -
501G HEM 4.9 2.2 - - - -
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Residues in contact with LEU 116 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112G ILE* 3.0 32.0 + - + +
113G PHE* 3.2 28.5 + - + +
115G GLY* 1.3 74.3 - - - +
117G TYR* 1.3 60.1 + - - +
118G TYR 3.6 0.2 + - - -
119G GLY 3.8 2.1 + - - -
121G TYR* 3.4 33.6 + - + +
129G TRP* 3.8 24.7 - - + -
343G MET* 4.8 6.3 - - + -
346G VAL* 4.1 15.5 - - + -
363G PHE* 3.6 11.3 - - - -
367G PHE* 4.0 12.1 - - + -
370G LEU* 4.3 13.2 - - + -
400G TRP* 6.0 1.3 - - + -
403G TYR* 4.9 5.8 + - + +
404G PHE* 4.4 14.4 - - + -
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Residues in contact with TYR 117 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113G PHE 3.0 11.3 + - - +
114G ARG 3.7 3.1 - - - +
116G LEU* 1.3 78.9 - - - +
118G TYR* 1.3 95.3 + + + +
119G GLY 3.5 0.6 + - - -
357G GLY* 3.1 25.3 + - - -
358G ARG* 3.5 26.1 - - - -
363G PHE* 4.3 6.1 - + - -
364G LYS* 3.7 22.8 - - + +
367G PHE* 3.3 46.4 - + + -
368G TRP* 4.2 19.4 + + - -
504G LOP 3.4 40.0 + - - +
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Residues in contact with TYR 118 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42G ASN* 3.4 11.9 + - - -
44G MET* 4.8 2.8 - - + +
45G TRP* 3.9 20.2 - + + -
114G ARG* 3.1 39.8 + - + +
115G GLY 3.3 0.2 + - - -
117G TYR* 1.3 100.7 - + + +
119G GLY* 1.3 64.5 + - - +
120G SER* 3.1 12.5 + - - +
222G ASN* 3.2 17.2 + - - +
223G ASN 4.5 0.2 - - - -
224G PRO* 3.5 45.1 - - + -
355G ARG* 3.8 14.2 - - - +
356G SER* 3.9 10.2 - - - -
357G GLY 4.1 2.7 - - - +
358G ARG* 4.4 1.1 - - - -
504G LOP 2.7 46.9 + - - -
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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