Contacts of the helix formed by residues 108 - 133 (chain C) in PDB entry 2AXT
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 THR 108 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C LEU* 2.7 36.8 - - + +
75C PHE* 5.2 3.5 - - - -
105C VAL* 5.4 6.1 - - - +
107C ASP* 1.3 74.0 + - - +
109C PHE* 1.3 58.8 + - + +
110C PRO 3.4 0.4 - - - -
111C PHE* 2.8 44.9 + - - +
112C PHE* 3.4 2.8 + - + -
10K LYS* 3.8 21.0 + - + +
12K PRO* 5.1 11.4 - - + -
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Residues in contact with PHE 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C ASP* 2.9 19.3 + - - +
108C THR* 1.3 82.5 - - + +
110C PRO* 1.3 65.3 - - + +
111C PHE 2.8 0.9 + - - -
112C PHE* 2.9 28.5 + + + +
113C VAL* 2.6 54.5 + - + +
505C BCR 4.0 18.8 - - + -
12K PRO* 5.2 9.0 - - + -
58Z ASN* 4.1 15.5 - - - -
59Z PHE* 4.2 23.1 - + - -
62Z VAL* 5.5 8.1 - - + -
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Residues in contact with PRO 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C ILE* 5.0 0.4 - - - -
97C TRP* 3.9 41.1 - - + +
98C GLY* 4.1 12.8 - - - +
107C ASP* 2.8 39.5 - - + +
108C THR 3.4 0.9 - - - -
109C PHE* 1.3 80.4 - - + +
111C PHE* 1.3 56.5 - - + +
113C VAL* 3.2 9.8 - - + +
114C VAL* 2.8 36.6 + - + +
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Residues in contact with PHE 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C THR* 3.7 9.9 - - + +
72C LEU* 4.4 17.9 - - + -
75C PHE* 5.4 6.1 - + - -
81C MET* 5.8 2.2 - - + -
89C ILE* 3.5 42.6 - - + -
92C ILE* 3.8 35.9 - - + -
93C ALA* 4.1 10.1 - - + -
97C TRP 3.3 26.7 - - - -
98C GLY 4.3 8.3 - - - -
99C VAL* 5.3 0.4 - - + -
105C VAL* 4.9 12.8 - - + -
107C ASP 4.3 9.2 - - - -
108C THR* 2.8 30.6 + - - +
110C PRO* 1.3 73.4 - - - +
112C PHE* 1.3 65.3 + - - +
114C VAL* 3.1 2.3 + - - +
115C GLY 2.9 21.0 + - - -
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Residues in contact with PHE 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C LEU* 3.8 20.6 - - + +
72C LEU* 3.6 16.4 - - + +
108C THR* 3.4 2.7 + - - +
109C PHE* 2.9 34.3 + + + +
111C PHE* 1.3 76.3 - - - +
113C VAL* 1.3 66.8 + - - +
115C GLY* 3.3 0.9 + - - -
116C VAL* 3.1 24.8 + - + +
504C BCR 4.0 24.7 - - + -
505C BCR 3.6 26.5 - - + -
11K LEU* 4.0 26.2 - - + -
12K PRO* 4.6 12.1 - - + -
15K TYR* 3.5 42.0 - + - -
58Z ASN* 4.0 1.6 - - - -
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Residues in contact with VAL 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C PHE* 2.6 63.3 + - + +
110C PRO* 3.2 10.3 - - + +
112C PHE* 1.3 74.5 - - - +
114C VAL* 1.3 69.2 + - + +
116C VAL* 3.1 14.7 - - - +
117C VAL* 3.1 31.0 - - + +
477C UNK 5.0 4.9 - - + -
505C BCR 4.7 11.4 - - + -
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Residues in contact with VAL 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C ILE* 3.9 22.9 - - + -
97C TRP* 4.9 9.0 - - + -
110C PRO* 2.8 23.7 + - + +
111C PHE 3.8 2.9 - - - +
113C VAL* 1.3 78.1 - - + +
115C GLY* 1.3 65.1 + - - +
117C VAL* 3.6 1.0 + - - +
118C HIS* 3.2 32.9 + - + -
477C UNK 4.1 15.5 - - + -
493C CLA 3.5 59.2 - - + -
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Residues in contact with GLY 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C ALA 4.9 0.2 - - - -
65C GLY* 3.0 33.1 - - - +
68C THR* 3.6 31.4 - - - +
69C LEU* 4.2 5.4 - - - -
111C PHE 2.9 12.9 + - - -
112C PHE 3.7 1.3 - - - -
114C VAL* 1.3 79.6 - - - +
116C VAL* 1.3 60.9 + - - +
118C HIS 3.5 0.3 + - - -
119C LEU 3.2 3.8 + - - -
493C CLA 5.2 0.2 - - - -
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Residues in contact with VAL 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C LEU* 4.2 9.8 - - + +
112C PHE* 3.1 16.4 + - + +
113C VAL* 3.1 17.5 - - - +
115C GLY* 1.3 70.9 - - - +
117C VAL* 1.3 80.8 + - + +
118C HIS 3.0 2.2 - - - -
119C LEU* 2.7 20.9 + - + +
120C ILE* 2.9 26.6 + - + +
504C BCR 3.4 25.4 - - + -
505C BCR 3.3 41.7 - - + -
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Residues in contact with VAL 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C VAL* 3.1 26.9 + - + +
114C VAL 3.8 1.3 - - - +
115C GLY 3.6 0.2 - - - -
116C VAL* 1.3 87.0 - - + +
118C HIS* 1.3 61.9 + - - +
120C ILE* 3.2 11.3 + - - +
121C SER* 2.8 30.9 + - - +
477C UNK 3.3 46.4 - - + -
505C BCR 5.0 27.7 - - + +
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Residues in contact with HIS 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C VAL* 3.0 30.1 - - + +
64C ALA* 3.5 23.1 - - + -
65C GLY* 3.7 11.7 - - - +
114C VAL* 3.2 26.1 + - + +
115C GLY 3.6 9.4 - - - +
116C VAL 3.0 0.8 - - - -
117C VAL* 1.3 79.2 - - - +
119C LEU* 1.3 54.9 + - - +
120C ILE 2.8 11.4 + - - -
121C SER* 2.9 11.1 + - - -
122C SER* 3.0 10.2 + - - -
477C UNK 3.3 33.4 - - + +
493C CLA 2.3 57.1 + + - -
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Residues in contact with LEU 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C PHE* 3.5 36.8 - - + -
65C GLY* 3.9 7.1 - - - -
66C ALA* 4.1 15.7 - - + +
69C LEU* 4.1 15.9 - - + -
115C GLY 3.2 9.9 + - - +
116C VAL* 2.7 18.1 + - + +
118C HIS* 1.3 74.1 - - - +
120C ILE* 1.3 53.3 + - - -
122C SER* 2.5 23.5 + - - -
504C BCR 3.4 59.2 - - + +
25K LEU* 4.1 13.0 - - + -
130X BCR 4.8 1.1 - - + -
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Residues in contact with ILE 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116C VAL* 2.9 34.5 + - + +
117C VAL 3.5 5.2 - - - +
118C HIS 2.8 1.0 + - - -
119C LEU* 1.3 77.4 - - - +
121C SER* 1.3 53.9 + - - +
122C SER 2.6 5.8 + - - -
123C ALA* 2.6 34.8 + - - +
124C VAL* 3.4 4.9 + - + +
504C BCR 4.4 17.0 - - + -
505C BCR 3.6 52.7 - - + -
47Z TRP* 3.6 29.2 - - + -
51Z VAL* 4.0 14.1 - - + -
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Residues in contact with SER 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C VAL* 4.4 2.2 - - - -
117C VAL* 2.8 19.8 + - - +
118C HIS 2.9 3.3 + - - -
120C ILE* 1.3 74.6 - - - +
122C SER* 1.3 56.2 + - - +
123C ALA 3.3 0.2 - - - -
124C VAL* 3.8 2.9 - - - -
125C LEU* 3.2 32.2 + - - +
477C UNK 3.4 34.9 - - - +
505C BCR 3.4 40.5 - - - +
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Residues in contact with SER 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C GLY 3.8 6.7 - - - -
61C VAL* 4.4 4.5 - - - -
62C PHE* 3.6 42.1 - - - -
118C HIS 3.0 5.5 + - - -
119C LEU 2.5 26.3 + - - -
120C ILE 2.6 1.2 + - - -
121C SER* 1.3 76.8 - - - +
123C ALA* 1.3 55.2 + - - -
124C VAL 3.2 0.2 - - - -
125C LEU* 4.0 3.7 - - - +
126C GLY* 2.6 32.9 + - - -
504C BCR 3.3 21.9 - - - +
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Residues in contact with ALA 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C ILE 2.6 17.6 + - - +
122C SER* 1.3 73.1 + - - +
124C VAL* 1.3 58.8 + - - +
126C GLY* 3.7 0.3 - - - -
127C PHE* 2.8 31.4 + - - +
501C CLA 3.8 7.6 - - + +
504C BCR 3.7 28.7 - - + -
47Z TRP* 3.6 32.1 - - + -
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Residues in contact with VAL 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C ILE* 4.0 13.0 - - + +
121C SER* 3.5 1.6 - - - +
122C SER 3.2 0.2 - - - -
123C ALA* 1.3 76.9 - - + +
125C LEU* 1.3 67.8 + - - +
127C PHE* 2.8 19.9 + - - +
128C GLY 3.1 8.7 + - - -
503C CLA 3.7 24.0 - - + +
505C BCR 3.3 59.2 - - + -
47Z TRP* 5.4 7.0 - - + -
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Residues in contact with LEU 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C VAL* 3.0 23.5 - - + +
57C ALA* 3.2 27.6 - - + +
58C GLY* 4.0 12.6 - - - -
61C VAL* 3.7 17.0 - - + -
121C SER 3.2 17.6 + - - +
122C SER 4.0 0.4 - - - +
124C VAL* 1.3 79.8 - - - +
126C GLY* 1.3 57.6 + - - +
128C GLY 3.0 1.4 + - - -
129C GLY* 3.0 24.6 + - - -
477C UNK 5.3 1.8 - - + -
493C CLA 5.1 3.8 - - + -
502C CLA 4.5 18.2 - - - +
503C CLA 3.9 19.3 - - + -
505C BCR 3.6 33.0 - - + -
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Residues in contact with GLY 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ALA* 5.0 3.4 - - - -
122C SER 2.6 23.7 + - - -
123C ALA 3.7 1.6 - - - -
125C LEU* 1.3 73.2 - - - +
127C PHE* 1.3 60.6 + - - +
129C GLY* 3.5 0.7 + - - -
130C VAL* 3.1 31.6 + - - +
501C CLA 3.7 6.3 - - - -
504C BCR 3.7 28.2 - - - +
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Residues in contact with PHE 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C ALA 2.8 13.3 + - - +
124C VAL* 2.8 14.6 + - - +
126C GLY* 1.3 76.2 - - - +
128C GLY* 1.3 60.9 + - - +
130C VAL* 4.2 2.4 - - - +
131C TYR* 3.1 28.0 + - + +
501C CLA 3.4 24.6 - - + +
503C CLA 4.0 30.1 - - + -
19Z MET* 4.7 3.1 - - + -
23Z VAL* 3.6 31.0 - - + -
27Z TYR* 3.6 22.8 - - - -
40Z ILE* 4.1 11.7 - - + -
44Z SER* 4.0 21.3 - - - -
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Residues in contact with GLY 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C VAL* 3.9 4.0 - - - -
124C VAL 3.1 6.5 + - - -
125C LEU 3.0 7.0 + - - -
127C PHE* 1.3 74.9 - - - +
129C GLY* 1.3 56.8 + - - +
131C TYR* 3.2 3.8 + - - +
132C HIS* 2.7 41.1 + - - +
503C CLA 3.2 35.4 - - - +
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Residues in contact with GLY 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLY* 3.3 25.0 - - - -
54C VAL* 3.3 5.1 - - - +
55C ALA* 3.5 18.8 - - - -
125C LEU 3.0 10.9 + - - -
126C GLY 3.9 0.2 - - - -
128C GLY* 1.3 78.1 - - - +
130C VAL* 1.3 63.9 + - - +
132C HIS* 3.1 0.7 + - - -
133C ALA* 3.0 24.5 + - - +
504C BCR 5.2 0.4 - - - -
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Residues in contact with VAL 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ALA* 4.4 2.0 - - - +
126C GLY 3.1 18.7 + - - +
127C PHE* 4.2 2.7 - - - +
129C GLY* 1.3 73.0 - - - +
131C TYR* 1.3 62.9 + - - +
133C ALA 3.7 0.2 + - - -
134C ILE* 3.0 50.2 + - + +
501C CLA 3.8 51.4 - - + -
504C BCR 4.4 14.8 - - + -
23Z VAL* 4.3 12.6 - - + -
24Z PRO* 4.4 6.7 - - + -
27Z TYR* 4.3 12.5 - - + -
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Residues in contact with TYR 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C PHE* 3.1 24.0 + - + +
128C GLY 3.4 1.6 - - - +
129C GLY 2.9 1.2 + - - -
130C VAL* 1.3 77.0 - - - +
132C HIS* 1.3 82.0 + + - +
133C ALA 3.1 0.2 - - - -
134C ILE 2.9 18.0 + - - -
135C ARG* 3.0 30.7 + - + -
136C GLY* 3.0 32.7 + - - -
137C PRO* 3.9 1.0 - - - +
503C CLA 2.5 80.4 + + + -
27Z TYR* 3.5 33.6 - + + +
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Residues in contact with HIS 132 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C GLY 3.0 17.0 + - - +
48C LYS* 2.8 19.9 + - - -
50C LEU* 3.5 25.7 - - + +
51C GLY* 3.5 18.6 - - - +
54C VAL* 5.0 1.6 - - + -
128C GLY 2.7 24.2 + - - +
131C TYR* 1.3 83.2 - + - +
133C ALA* 1.3 54.7 + - - +
134C ILE 3.4 1.3 - - - -
136C GLY* 4.6 5.8 - - - -
137C PRO* 4.1 6.9 + - + +
140C LEU* 5.1 4.8 - - + +
503C CLA 2.4 84.7 + + + -
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Residues in contact with ALA 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C LYS* 2.8 21.9 + - - +
51C GLY* 4.1 8.7 - - - -
129C GLY 3.0 15.4 + - - +
130C VAL 4.4 1.1 - - - +
132C HIS* 1.3 75.5 - - - +
134C ILE* 1.3 65.3 + - + +
501C CLA 3.7 37.9 - - + +
504C BCR 4.0 24.5 - - + -
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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