Contacts of the helix formed by residues 120 - 143 (chain Q) in PDB entry 2X17
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 LEU 120 (chain Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10Q LEU* 5.2 0.2 - - + -
57Q PHE* 4.2 16.4 - - + -
101Q ILE* 4.2 21.3 - - + +
104Q LEU* 3.7 58.6 - - + +
105Q ALA* 3.8 8.7 - - + +
108Q ALA* 4.6 0.4 - - + -
116Q THR* 3.0 35.4 + - + +
117Q ARG* 4.0 11.4 - - - +
118Q ALA 3.4 0.4 - - - -
119Q PHE* 1.3 80.1 - - + +
121Q GLU* 1.3 59.5 + - - +
122Q TRP 3.2 1.8 - - - -
123Q PHE* 3.1 9.4 + - + +
124Q ILE* 3.1 35.7 + - + +
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Residues in contact with GLU 121 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117L ARG* 4.8 3.3 + - - +
118L ALA* 3.6 27.7 - - - +
121L GLU* 4.6 17.5 - - + +
121N GLU* 4.3 16.5 - - + +
117Q ARG* 2.8 45.1 + - - +
118Q ALA 3.4 15.7 + - - +
119Q PHE 3.1 1.0 - - - -
120Q LEU* 1.3 76.2 - - - +
122Q TRP* 1.3 62.7 + - - +
124Q ILE* 3.7 7.7 - - - +
125Q ASN* 3.0 41.0 + - - +
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Residues in contact with TRP 122 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1708 MET* 4.0 19.1 - - + -
1718 GLN 3.8 4.5 + - - -
1728 GLY* 3.6 35.1 - - - -
53Q HIS* 3.6 30.3 - + - -
56Q ARG* 3.4 44.8 - - - +
118Q ALA 4.5 1.0 + - - +
119Q PHE* 3.5 13.3 + - + +
120Q LEU 3.2 0.2 - - - -
121Q GLU* 1.3 80.1 - - - +
123Q PHE* 1.3 82.0 + + + +
125Q ASN* 3.6 5.4 + - - +
126Q GLU* 3.0 42.3 + - + +
1173Q AG 3.9 10.1 - - - -
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Residues in contact with PHE 123 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17Q GLU* 4.3 8.3 - - - -
53Q HIS* 3.6 34.1 - - + -
56Q ARG* 3.7 15.5 - - + -
57Q PHE* 3.4 32.8 - + - -
101Q ILE* 4.0 21.3 - - + -
119Q PHE* 3.5 42.8 - + - -
120Q LEU* 3.1 12.3 + - - +
122Q TRP* 1.3 97.0 - + + +
124Q ILE* 1.3 60.7 + - - +
126Q GLU* 3.3 14.8 - - - +
127Q GLN* 2.8 35.2 + - - +
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Residues in contact with ILE 124 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114L TYR* 3.5 43.5 - - + +
115L SER* 3.8 9.2 + - - +
118L ALA* 3.8 9.0 - - + -
101Q ILE* 3.8 20.4 - - + -
102Q TYR* 4.6 6.1 - - + -
105Q ALA* 4.5 10.1 - - + -
117Q ARG* 3.4 37.7 - - - +
120Q LEU* 3.1 16.2 + - + +
121Q GLU* 3.7 12.1 - - - +
122Q TRP 3.4 0.2 - - - -
123Q PHE* 1.3 77.2 - - - +
125Q ASN* 1.3 62.3 + - - +
127Q GLN* 3.6 3.8 + - - +
128Q VAL* 3.3 21.7 + - - +
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Residues in contact with ASN 125 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115L SER 5.0 1.0 - - - +
118L ALA* 3.5 37.2 + - - +
119L PHE* 4.0 4.3 + - - +
121Q GLU* 3.0 29.1 + - - +
122Q TRP* 3.8 5.1 - - - +
123Q PHE 3.3 0.4 - - - -
124Q ILE* 1.3 75.3 - - - +
126Q GLU* 1.3 62.9 + - - +
128Q VAL* 3.6 19.2 + - - +
129Q GLU* 3.8 9.9 + - - +
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Residues in contact with GLU 126 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1708 MET* 4.0 8.7 - - - -
53Q HIS* 3.1 16.3 - - - -
122Q TRP* 3.0 43.6 + - + +
123Q PHE* 3.3 19.5 - - - +
124Q ILE 3.3 0.2 - - - -
125Q ASN* 1.3 76.8 - - - +
127Q GLN* 1.3 83.5 + - - +
129Q GLU* 3.1 23.9 + - - +
130Q GLU* 3.0 43.2 + - + +
1173Q AG 3.8 11.2 - - - -
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Residues in contact with GLN 127 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64L ARG* 5.3 0.9 - - - -
17Q GLU* 4.7 7.1 + - - -
50Q GLU* 5.2 2.6 + - - -
53Q HIS* 5.2 0.4 - - - -
94Q GLU* 2.9 33.4 + - - +
97Q ILE* 3.6 25.7 - - + +
98Q SER* 3.1 34.2 + - - +
101Q ILE* 4.6 8.5 - - + -
123Q PHE* 2.8 20.8 + - + +
124Q ILE* 3.6 5.4 + - - +
125Q ASN 3.4 0.2 - - - -
126Q GLU* 1.3 98.2 + - - +
128Q VAL* 1.3 61.1 + - - +
130Q GLU* 3.9 5.8 + - - +
131Q GLU* 3.1 34.5 + - - +
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Residues in contact with VAL 128 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60L TYR* 4.1 17.0 - - + -
63L ASP* 4.2 18.1 - - + +
64L ARG* 3.8 29.1 + - - +
115L SER* 3.7 31.9 - - - +
124Q ILE 3.3 17.5 - - - +
125Q ASN* 3.6 12.6 - - - +
126Q GLU 3.2 0.6 - - - -
127Q GLN* 1.3 77.9 - - - +
129Q GLU* 1.3 62.2 + - + +
131Q GLU* 4.2 1.6 - - - +
132Q ALA* 3.2 23.9 + - - +
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Residues in contact with GLU 129 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1708 MET* 3.4 27.9 - - + +
63L ASP* 5.6 6.5 - - - +
125Q ASN 3.8 7.6 + - - +
126Q GLU* 3.1 12.6 + - - +
128Q VAL* 1.3 81.4 - - + +
130Q GLU* 1.3 56.8 + - - +
132Q ALA* 3.4 6.2 + - - +
133Q SER* 2.9 29.6 + - - -
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Residues in contact with GLU 130 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1708 MET* 4.8 10.9 - - + +
46Q GLN* 2.9 31.4 + - - +
49Q GLU* 4.5 1.6 - - - +
50Q GLU* 3.0 16.3 - - - +
53Q HIS* 3.1 14.4 + - - -
94Q GLU* 3.1 28.1 - - - +
126Q GLU* 3.0 37.3 + - + +
127Q GLN* 3.7 5.8 + - - +
128Q VAL 3.4 0.2 - - - -
129Q GLU* 1.3 77.3 - - - +
131Q GLU* 1.3 61.6 + - - +
133Q SER* 3.3 6.4 + - - -
134Q VAL* 3.0 35.4 + - + +
1173Q AG 3.9 3.6 - - - -
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Residues in contact with GLU 131 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1L MET 5.6 4.0 + - - -
63L ASP 5.1 2.5 - - - +
64L ARG* 4.1 19.6 + - - +
91Q TYR* 3.5 23.5 + - + -
94Q GLU* 3.6 26.1 - - + +
95Q LYS* 3.7 23.8 - - - +
98Q SER* 2.7 31.9 + - - +
102Q TYR* 5.2 0.9 + - - -
127Q GLN 3.1 18.2 + - - +
128Q VAL* 4.2 4.0 - - - +
130Q GLU* 1.3 75.6 - - - +
132Q ALA* 1.3 57.6 + - - +
134Q VAL* 4.9 0.2 - - - -
135Q LYS* 3.0 30.4 + - - +
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Residues in contact with ALA 132 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62L TYR 5.3 0.4 - - - +
63L ASP* 3.4 43.2 + - - +
128Q VAL 3.2 17.2 + - - +
129Q GLU* 3.7 5.2 - - - +
130Q GLU 3.3 0.2 - - - -
131Q GLU* 1.3 76.4 - - - +
133Q SER* 1.3 59.3 + - - +
135Q LYS* 4.0 5.2 - - - +
136Q LYS* 3.0 30.5 + - - +
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Residues in contact with SER 133 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42Q TRP* 3.6 21.7 + - - -
46Q GLN* 5.3 2.7 + - - -
129Q GLU 2.9 18.2 + - - -
130Q GLU* 3.3 10.3 + - - -
132Q ALA* 1.3 79.1 - - - +
134Q VAL* 1.3 60.5 + - - +
136Q LYS* 3.6 13.1 + - - +
137Q ILE* 3.6 20.0 + - - +
161Q ARG* 5.3 0.5 + - - -
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Residues in contact with VAL 134 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24Q TYR* 4.8 6.7 - - + +
42Q TRP* 4.3 20.4 - - + -
43Q MET* 6.5 0.4 - - + -
46Q GLN* 5.6 4.0 - - - +
87Q PHE* 3.9 29.0 - - + +
90Q ALA* 4.1 5.8 - - + -
91Q TYR* 3.9 34.5 - - + +
94Q GLU* 4.1 18.6 - - + -
130Q GLU* 3.0 21.5 + - + +
131Q GLU 4.2 2.5 - - - +
133Q SER* 1.3 75.1 - - - +
135Q LYS* 1.3 61.1 + - - +
137Q ILE 3.4 1.6 + - - -
138Q LEU* 3.0 25.1 + - - +
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Residues in contact with LYS 135 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1L MET* 5.3 0.9 - - - -
65L ASN* 3.6 39.7 + - + +
91Q TYR* 3.6 39.4 - - + +
131Q GLU 3.0 20.0 + - - +
132Q ALA* 4.0 5.8 - - - +
133Q SER 3.4 0.2 - - - -
134Q VAL* 1.3 75.1 - - - +
136Q LYS* 1.3 58.6 + - - +
138Q LEU* 3.5 12.0 - - + +
139Q ASP* 2.8 73.8 + - - +
142Q LYS* 5.3 5.3 - - - +
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Residues in contact with LYS 136 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353 GLY 5.9 1.1 - - - +
373 GLU* 3.4 41.3 + - + +
132Q ALA 3.0 19.2 + - - +
133Q SER* 3.7 9.4 - - - +
134Q VAL 3.3 0.4 - - - -
135Q LYS* 1.3 77.0 - - - +
137Q ILE* 1.3 63.4 + - + +
139Q ASP* 4.0 6.3 + - - +
140Q LYS* 3.4 49.8 + - - +
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Residues in contact with ILE 137 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39Q PHE* 4.4 7.0 - - + -
42Q TRP* 3.5 39.0 - - + +
87Q PHE* 3.8 36.3 - - + -
133Q SER* 3.6 12.5 + - - +
134Q VAL 3.4 2.5 + - - +
135Q LYS 3.2 0.2 - - - -
136Q LYS* 1.3 79.1 - - + +
138Q LEU* 1.3 66.7 + - - +
139Q ASP 3.3 0.4 - - - -
140Q LYS* 3.1 18.7 + - + +
141Q LEU* 3.1 16.0 + - + +
154Q LEU* 4.7 9.9 - - + -
158Q LEU* 3.8 33.0 - - + -
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Residues in contact with LEU 138 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84Q LEU* 3.8 4.4 - - + +
87Q PHE* 3.4 35.8 - - + +
88Q GLU* 3.7 28.7 - - + +
91Q TYR* 3.6 29.8 - - + -
134Q VAL 3.0 15.3 + - - +
135Q LYS* 3.5 12.3 - - + +
137Q ILE* 1.3 77.5 - - - +
139Q ASP* 1.3 62.7 + - - +
141Q LEU* 3.1 9.8 + - - +
142Q LYS* 3.0 52.2 + - + +
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Residues in contact with ASP 139 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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343 LEU 6.1 1.6 - - - +
353 GLY* 6.4 2.2 - - - -
65L ASN* 4.6 2.3 - - - +
135Q LYS* 2.8 55.7 + - - +
136Q LYS* 4.2 6.0 - - - +
138Q LEU* 1.3 78.3 - - - +
140Q LYS* 1.3 58.1 + - + +
142Q LYS* 3.4 22.7 + - - +
143Q PHE* 3.0 26.4 + - - +
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Residues in contact with LYS 140 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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353 GLY 4.8 13.0 - - - +
373 GLU* 6.5 0.2 - - - -
1523 PHE* 4.6 18.1 - - + -
1553 ASP* 5.8 3.2 + - - -
136Q LYS* 3.4 43.5 + - - +
137Q ILE* 3.1 13.1 + - + +
139Q ASP* 1.3 77.5 - - + +
141Q LEU* 1.3 57.8 + - - +
142Q LYS 3.4 0.2 - - - -
143Q PHE* 3.4 14.3 - - + +
144Q ALA* 3.2 24.9 + - - +
150Q ILE* 5.0 1.3 - - + +
154Q LEU* 3.8 34.8 - - + +
157Q GLU* 3.7 20.2 + - - -
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Residues in contact with LEU 141 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39Q PHE* 4.1 8.3 - - + -
83Q PRO* 3.5 33.0 - - + +
84Q LEU* 3.7 25.2 - - + +
87Q PHE* 3.6 29.4 - - + -
137Q ILE* 3.1 19.7 + - + +
138Q LEU* 3.1 9.2 + - - +
140Q LYS* 1.3 75.6 - - - +
142Q LYS* 1.3 62.5 + - - +
143Q PHE 3.2 1.3 - - - -
144Q ALA* 3.4 23.0 + - + +
145Q LYS* 3.9 3.3 + - - -
151Q LEU* 3.8 29.2 - - + -
154Q LEU* 4.1 13.7 - - + -
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Residues in contact with LYS 142 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84Q LEU* 3.7 20.0 - - + -
88Q GLU* 4.4 11.9 - - - -
135Q LYS* 5.3 4.4 - - - +
138Q LEU* 3.0 26.3 + - + +
139Q ASP* 3.5 27.1 + - - +
141Q LEU* 1.3 76.8 - - - +
143Q PHE* 1.3 60.2 + - - +
145Q LYS* 3.3 31.9 - - - +
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Residues in contact with PHE 143 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343 LEU 5.8 3.8 - - - -
363 LEU* 5.4 7.0 - - + -
1483 PRO* 3.7 48.2 - - + +
1513 LEU* 4.0 24.5 - - + -
1523 PHE* 4.5 19.1 - + + -
139Q ASP 3.0 17.0 + - - +
140Q LYS* 3.4 15.7 - - + +
141Q LEU 3.2 0.6 - - - -
142Q LYS* 1.3 77.8 - - - +
144Q ALA* 1.3 56.8 + - - +
145Q LYS 3.6 2.2 + - - -
150Q ILE* 4.5 16.8 - - + +
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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