Contacts of the helix formed by residues 123 - 151 (chain Q) in PDB entry 6P19
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 123 (chain Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95Q HIS* 6.0 4.7 - - + +
98Q ALA* 4.3 9.0 - - + +
99Q SER* 5.5 10.5 - - - -
102Q HIS* 3.5 36.2 + - + +
122Q SER* 1.3 84.5 + - - +
124Q ALA* 1.3 66.6 + - + +
125Q THR 3.4 0.4 - - - -
126Q CYS* 3.2 2.6 + - - +
127Q ARG* 2.9 27.2 + - - +
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Residues in contact with ALA 124 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122Q SER* 3.3 5.9 + - - +
123Q LEU* 1.3 83.8 - - + +
125Q THR* 1.3 60.7 + - - +
127Q ARG* 3.3 10.2 + - - +
128Q ARG* 2.9 52.3 + - - +
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Residues in contact with THR 125 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122Q SER* 3.4 36.7 + - - +
124Q ALA* 1.3 77.6 - - - +
126Q CYS* 1.3 59.7 + - - +
128Q ARG* 3.5 15.3 - - - +
129Q GLU* 2.9 31.3 + - - +
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Residues in contact with CYS 126 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98Q ALA* 3.3 28.3 - - - -
101Q TYR* 3.7 22.0 - - - -
102Q HIS* 3.9 7.9 - - + -
122Q SER 3.4 14.1 - - - +
123Q LEU* 3.2 11.2 + - - +
124Q ALA 3.2 0.2 - - - -
125Q THR* 1.3 80.9 - - - +
127Q ARG* 1.3 60.7 + - - +
129Q GLU* 3.1 26.3 - - - +
130Q VAL* 3.0 30.6 + - - +
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Residues in contact with ARG 127 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94Q LYS* 4.3 14.3 - - + +
95Q HIS* 3.3 42.9 + - - +
98Q ALA* 3.7 22.9 - - + +
123Q LEU 2.9 13.5 + - - +
124Q ALA* 3.3 12.5 + - - +
126Q CYS* 1.3 75.2 - - - +
128Q ARG* 1.3 61.5 + - + +
130Q VAL* 3.2 7.2 - - + +
131Q ASP* 2.8 32.3 + - + +
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Residues in contact with ARG 128 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124Q ALA* 2.9 42.9 + - - +
125Q THR* 3.5 16.8 - - - +
126Q CYS 3.2 0.2 - - - -
127Q ARG* 1.3 77.7 - - + +
129Q GLU* 1.3 57.7 + - - +
131Q ASP* 2.8 28.4 - - - +
132Q GLU* 3.0 16.5 + - - +
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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
----------------------------------------------------------
101Q TYR* 4.8 5.4 - - - -
125Q THR* 2.9 23.3 + - - +
126Q CYS* 3.1 28.0 - - - +
128Q ARG* 1.3 73.5 - - - +
130Q VAL* 1.3 84.1 + - - +
132Q GLU* 3.3 16.3 - - - +
133Q ILE* 3.0 44.9 + - + +
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Residues in contact with VAL 130 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83Q ILE* 3.7 23.3 - - + +
94Q LYS* 4.8 15.4 + - + +
97Q ILE* 4.6 19.1 - - + +
98Q ALA* 4.8 2.2 - - + -
101Q TYR* 4.4 19.5 - - + -
126Q CYS* 3.0 15.2 + - - +
127Q ARG* 3.2 21.8 - - + +
129Q GLU* 1.3 99.5 - - - +
131Q ASP* 1.3 58.0 + - + +
133Q ILE* 3.3 11.0 - - + +
134Q LEU* 3.0 27.9 + - - +
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Residues in contact with ASP 131 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94Q LYS* 5.9 8.5 - - + -
127Q ARG* 2.8 27.7 + - + +
128Q ARG* 2.8 29.3 - - - +
130Q VAL* 1.3 80.4 - - + +
132Q GLU* 1.3 67.4 + - - +
134Q LEU* 3.3 8.3 + - - +
135Q ASN* 2.9 26.9 + - - +
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Residues in contact with GLU 132 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128Q ARG 3.0 18.1 + - - +
129Q GLU* 3.3 17.5 - - - +
131Q ASP* 1.3 83.3 + - - +
133Q ILE* 1.3 82.0 + - - +
135Q ASN* 3.6 8.4 - - + +
136Q ALA* 2.9 29.8 + - - +
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Residues in contact with ILE 133 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77Q ASP* 5.0 8.0 - - - +
79Q LYS* 4.3 9.6 - - + -
80Q ALA* 3.8 29.7 - - + +
83Q ILE* 3.8 20.4 - - + -
101Q TYR* 6.4 0.7 - - + -
129Q GLU* 3.0 34.3 + - - +
130Q VAL* 3.3 17.3 - - + +
132Q GLU* 1.3 90.5 - - - +
134Q LEU* 1.3 60.5 + - - +
136Q ALA* 3.8 6.3 - - + +
137Q SER* 2.8 30.7 + - - -
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Residues in contact with LEU 134 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80Q ALA* 4.8 1.8 - - + +
83Q ILE* 4.1 17.7 - - + -
84Q LEU* 4.2 23.8 - - + -
87Q TYR* 4.6 11.2 - - + -
88Q TYR* 5.6 4.0 - - + +
94Q LYS* 3.4 33.9 - - - +
130Q VAL 3.0 18.4 + - - +
131Q ASP* 3.6 8.5 - - - +
133Q ILE* 1.3 78.3 - - - +
135Q ASN* 1.3 56.0 + - - +
137Q SER* 2.8 22.5 + - - +
138Q LEU* 2.9 38.3 + - + +
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Residues in contact with ASN 135 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7Q ASN* 3.9 25.9 + - - +
131Q ASP 2.9 17.0 + - - +
132Q GLU* 3.3 9.3 + - + +
134Q LEU* 1.3 75.0 - - - +
136Q ALA* 1.3 58.5 + - - +
138Q LEU* 3.4 4.8 + - - +
139Q PHE* 2.9 55.2 + - - -
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Residues in contact with ALA 136 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132Q GLU* 2.9 20.8 + - - +
133Q ILE* 3.8 7.9 - - - +
135Q ASN* 1.3 75.2 - - - +
137Q SER* 1.3 60.4 + - - +
139Q PHE* 3.3 8.6 + - - +
140Q MET* 2.9 38.6 + - + +
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Residues in contact with SER 137 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74Q MET* 3.8 32.4 - - - +
80Q ALA* 4.5 12.5 - - - +
84Q LEU* 5.0 6.4 - - - +
133Q ILE 2.8 19.2 + - - -
134Q LEU* 2.8 24.4 + - - +
136Q ALA* 1.3 74.4 - - - +
138Q LEU* 1.3 60.9 + - - +
140Q MET* 3.4 3.9 + - - +
141Q ILE* 2.9 30.1 + - - +
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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
----------------------------------------------------------
8Q LEU* 6.4 0.2 - - + -
16Q LEU* 3.7 45.7 - - + +
20Q LEU* 3.7 24.5 - - + -
84Q LEU* 6.2 2.5 - - + -
88Q TYR* 5.2 4.9 - - + +
134Q LEU* 2.9 43.1 + - + +
135Q ASN* 3.8 6.3 - - - +
137Q SER* 1.3 81.5 + - - +
139Q PHE* 1.3 64.1 + - + +
141Q ILE* 3.4 18.5 - - + +
142Q TYR* 3.0 34.3 + - + +
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Residues in contact with PHE 139 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7Q ASN* 3.2 31.2 - - + -
8Q LEU* 3.6 46.9 - - + -
135Q ASN* 2.9 39.6 + - - +
136Q ALA* 3.3 8.0 + - - +
138Q LEU* 1.3 79.5 - - + +
140Q MET* 1.3 76.6 + - + +
142Q TYR* 5.0 2.2 - - + -
143Q PRO* 3.5 18.2 - - - +
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Residues in contact with MET 140 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73Q VAL* 4.5 21.6 - - + +
74Q MET* 4.6 7.6 - - + -
136Q ALA* 2.9 26.1 + - + +
137Q SER* 3.8 6.3 - - - +
138Q LEU 3.2 0.2 - - - -
139Q PHE* 1.3 95.0 - - + +
141Q ILE* 1.3 61.1 + - - +
142Q TYR 3.6 0.2 + - - -
143Q PRO* 3.8 6.8 - - - +
144Q VAL* 3.6 13.5 - - - +
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Residues in contact with ILE 141 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20Q LEU* 5.5 7.9 - - + -
69Q VAL* 3.8 20.9 - - + +
70Q VAL* 3.7 28.9 - - + -
73Q VAL* 3.7 27.1 - - + -
74Q MET* 5.4 3.4 - - + -
137Q SER 2.9 20.5 + - - +
138Q LEU* 3.4 27.8 - - + +
140Q MET* 1.3 77.4 - - - +
142Q TYR* 1.3 68.8 + - + +
143Q PRO 3.7 0.2 - - - -
144Q VAL* 3.3 7.5 - - + +
145Q LEU* 3.1 31.2 + - + +
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Residues in contact with TYR 142 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8Q LEU* 4.6 13.2 - - + -
12Q GLN* 3.3 57.8 - - + +
15Q TRP* 3.2 38.8 - + - +
16Q LEU* 3.6 24.7 - - + -
138Q LEU* 3.0 17.6 + - + +
139Q PHE* 4.7 2.9 - - + +
141Q ILE* 1.3 78.6 - - + +
143Q PRO* 1.4 65.9 - - + +
145Q LEU* 3.0 11.6 + - + +
146Q ASP* 2.8 61.6 + - - +
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Residues in contact with PRO 143 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139Q PHE 3.5 18.6 - - - +
140Q MET 3.8 6.1 - - - +
142Q TYR* 1.4 93.8 - - + +
144Q VAL* 1.3 59.6 + - + +
146Q ASP* 3.2 13.6 + - + +
147Q SER* 3.0 27.6 + - - -
150Q LYS* 5.2 0.2 + - - -
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Residues in contact with VAL 144 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69Q VAL* 4.8 16.6 - - + -
72Q SER* 6.0 1.6 - - - +
73Q VAL* 5.4 7.4 - - + -
140Q MET 3.6 16.4 - - - +
141Q ILE* 3.3 29.8 - - + +
143Q PRO* 1.3 79.3 - - + +
145Q LEU* 1.3 56.5 + - - +
147Q SER* 2.8 20.8 + - - +
148Q ALA* 2.9 20.6 + - + +
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Residues in contact with LEU 145 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15Q TRP* 4.7 23.1 - - + -
16Q LEU* 6.1 3.8 - - + -
19Q TRP* 5.5 11.7 - - + -
20Q LEU* 5.3 12.3 - - + -
65Q LEU* 4.9 7.6 - - + -
66Q ILE* 3.7 32.8 - - + -
69Q VAL* 4.6 12.1 - - + -
141Q ILE* 3.1 31.4 + - + +
142Q TYR* 3.0 13.5 + - + +
144Q VAL* 1.3 76.3 - - - +
146Q ASP* 1.3 59.7 + - - +
148Q ALA* 3.7 3.1 - - + -
149Q PHE* 2.9 35.0 + - + +
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Residues in contact with ASP 146 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15Q TRP* 4.0 12.7 - - - -
142Q TYR* 2.8 54.4 + - - +
143Q PRO* 3.2 11.8 + - - +
145Q LEU* 1.3 77.1 - - - +
147Q SER* 1.3 56.6 + - - +
149Q PHE* 3.2 6.8 + - - +
150Q LYS* 3.0 47.7 + - - +
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Residues in contact with SER 147 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143Q PRO 3.0 12.9 + - - -
144Q VAL* 2.8 24.9 + - - +
146Q ASP* 1.3 75.7 - - - +
148Q ALA* 1.3 54.9 + - - +
150Q LYS* 3.2 17.0 + - - +
151Q ASN* 2.9 35.9 + - - +
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Residues in contact with ALA 148 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65Q LEU* 4.3 21.4 - - + +
69Q VAL* 4.1 23.1 - - + -
144Q VAL* 2.9 19.9 + - + +
145Q LEU* 3.8 6.3 - - + +
146Q ASP 3.3 0.2 - - - -
147Q SER* 1.3 75.2 + - - +
149Q PHE* 1.3 60.2 + - - +
151Q ASN* 3.0 19.0 - - - +
152Q ARG* 4.4 10.7 - - - +
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Residues in contact with PHE 149 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15Q TRP* 4.5 22.7 - + + -
19Q TRP* 3.5 39.7 - + - -
62Q ASP* 6.2 0.9 - - + -
65Q LEU* 5.2 7.6 - - + +
145Q LEU* 2.9 25.7 + - + +
146Q ASP* 3.6 7.4 - - - +
147Q SER 3.2 0.2 - - - -
148Q ALA* 1.3 78.9 - - - +
150Q LYS* 1.3 64.2 + - - +
151Q ASN 3.4 0.3 + - - -
152Q ARG* 3.8 14.4 + - - +
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Residues in contact with LYS 150 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146Q ASP* 3.0 49.1 + - - +
147Q SER* 3.2 17.8 + - - +
149Q PHE* 1.3 79.2 - - - +
151Q ASN* 1.3 58.4 + - + +
152Q ARG 3.2 8.4 + - - +
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Residues in contact with ASN 151 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147Q SER* 2.9 22.6 + - - +
148Q ALA* 3.0 21.0 - - - +
149Q PHE 3.3 0.2 - - - -
150Q LYS* 1.3 78.9 - - + +
152Q ARG* 1.3 56.3 + - - +
153Q LYS 4.3 0.9 + - - -
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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