Contacts of the helix formed by residues 153 - 180 (chain 2) in PDB entry 1CNT
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 GLU 153 (chain 2).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1522 PHE* 1.3 79.7 - - + +
1542 LYS* 1.3 56.5 + - - +
1562 LEU* 3.5 12.1 + - + +
1572 TRP* 3.0 29.6 + - - +
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Residues in contact with LYS 154 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382 TYR* 3.2 6.2 + - - -
892 ARG 3.7 14.9 + - - -
902 LEU* 3.2 38.3 + - + +
912 LEU 3.9 11.2 + - - -
1522 PHE 3.2 3.4 - - - +
1532 GLU* 1.3 76.2 - - - +
1552 LYS* 1.3 66.1 + - + +
1572 TRP* 3.9 9.1 - - + +
1582 GLY* 3.0 17.8 + - - -
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Residues in contact with LYS 155 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382 TYR* 2.7 36.4 + - - -
422 GLN* 2.8 56.5 + - + +
432 GLY 5.4 0.4 + - - -
442 LEU* 4.0 10.4 - - + +
1522 PHE* 3.0 50.7 + - + +
1542 LYS* 1.3 78.4 - - + +
1562 LEU* 1.3 63.4 + - - +
1592 LEU* 3.4 2.8 + - - +
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Residues in contact with LEU 156 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442 LEU* 4.2 13.7 - - + -
1522 PHE* 3.1 45.5 + - + +
1532 GLU* 3.7 12.8 - - + +
1552 LYS* 1.3 76.7 - - - +
1572 TRP* 1.3 57.0 + - - +
1592 LEU* 3.2 13.5 + - + +
1602 LYS* 2.9 28.4 + - - +
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Residues in contact with TRP 157 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
862 LEU* 4.5 25.9 + - + +
902 LEU* 4.8 12.8 - - + -
1532 GLU 3.0 18.6 + - - +
1542 LYS* 4.1 9.4 - - + +
1562 LEU* 1.3 74.1 - - - +
1582 GLY* 1.3 66.9 + - - +
1602 LYS* 3.1 26.7 + - + +
1612 VAL* 2.9 49.1 + - + +
1642 GLU* 6.6 0.2 - - + -
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Residues in contact with GLY 158 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
382 TYR* 3.2 20.0 - - - -
902 LEU* 3.6 29.1 - - - +
1542 LYS 3.0 11.3 + - - -
1562 LEU 3.3 0.4 - - - -
1572 TRP* 1.3 77.7 - - - +
1592 LEU* 1.3 62.1 + - - +
1612 VAL* 3.4 2.8 + - - +
1622 LEU* 3.1 27.5 + - - +
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Residues in contact with LEU 159 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352 THR* 3.7 24.2 - - + -
382 TYR* 3.4 24.3 - - + -
392 VAL* 3.7 18.4 - - + -
442 LEU* 4.3 21.3 - - + -
1552 LYS 3.9 2.5 - - - +
1562 LEU* 3.2 14.3 + - + +
1572 TRP 3.2 0.2 - - - -
1582 GLY* 1.3 75.9 - - - +
1602 LYS* 1.3 63.7 + - - +
1622 LEU* 3.2 4.8 + - + +
1632 GLN* 2.9 59.6 + - + +
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Residues in contact with LYS 160 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1562 LEU 2.9 13.8 + - - +
1572 TRP* 3.5 34.1 - - + +
1592 LEU* 1.3 75.7 - - - +
1612 VAL* 1.3 59.7 + - - +
1632 GLN* 3.3 19.5 + - - +
1642 GLU* 2.9 64.7 + - + +
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Residues in contact with VAL 161 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
832 PHE* 3.9 10.3 - - + -
862 LEU* 4.0 25.8 - - + -
872 LEU* 3.4 31.4 - - + +
902 LEU* 4.8 7.0 - - + -
1572 TRP* 2.9 56.6 + - + +
1582 GLY* 3.9 3.8 - - - +
1602 LYS* 1.3 71.9 - - - +
1622 LEU* 1.3 66.4 + - - +
1642 GLU* 3.4 8.4 + - - +
1652 LEU* 3.1 21.3 + - - +
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Residues in contact with LEU 162 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
312 LEU* 3.8 23.6 - - + +
342 LEU* 4.3 20.0 - - + -
352 THR* 4.0 24.2 - - + +
382 TYR* 4.4 29.4 - - + -
872 LEU* 4.8 9.0 - - + -
902 LEU* 5.2 4.3 - - + -
1052 PHE* 4.9 3.6 - - + -
1092 ILE* 4.4 9.2 - - + -
1122 LEU* 4.0 15.9 - - + -
1582 GLY 3.1 19.2 + - - +
1592 LEU* 3.6 7.4 - - - +
1612 VAL* 1.3 76.4 - - - +
1632 GLN* 1.3 64.5 + - + +
1652 LEU* 3.2 8.6 + - + +
1662 SER* 3.2 23.5 + - - -
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Residues in contact with GLN 163 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352 THR* 5.0 7.4 - - + +
1592 LEU* 2.9 53.9 + - + +
1602 LYS* 3.6 23.5 - - - +
1622 LEU* 1.3 76.0 - - - +
1642 GLU* 1.3 67.3 + - - +
1662 SER* 3.1 18.8 + - - -
1672 GLN* 3.2 19.1 + - - +
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Residues in contact with GLU 164 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
832 PHE* 3.5 21.9 - - + -
1602 LYS* 2.9 59.0 + - + +
1612 VAL* 3.7 7.6 - - - +
1632 GLN* 1.3 77.9 - - - +
1652 LEU* 1.3 61.2 + - - +
1672 GLN* 3.4 26.4 + - - +
1682 TRP* 3.2 20.5 + - + +
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Residues in contact with LEU 165 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272 ILE* 4.2 6.7 - - + -
312 LEU* 3.6 20.4 - - + -
802 TYR* 4.1 22.4 - - + +
832 PHE* 3.5 38.8 - - + -
872 LEU* 4.2 18.6 - - + -
1122 LEU* 4.2 10.8 - - + -
1162 VAL* 4.0 22.2 - - + -
1612 VAL 3.1 12.9 + - - +
1622 LEU* 3.4 10.1 - - + +
1632 GLN 3.2 0.2 - - - -
1642 GLU* 1.3 75.2 - - - +
1662 SER* 1.3 64.5 + - - +
1682 TRP* 3.2 0.9 + - - -
1692 THR* 3.1 30.2 + - + +
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Residues in contact with SER 166 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282 ARG* 4.9 9.6 + - - +
312 LEU* 3.6 25.9 - - - +
352 THR* 5.0 2.4 + - - -
1622 LEU 3.2 12.6 + - - -
1632 GLN* 3.1 12.2 + - - -
1652 LEU* 1.3 76.0 - - - +
1672 GLN* 1.3 64.4 + - - +
1692 THR* 2.7 25.8 + - - -
1702 VAL* 3.5 10.0 + - - +
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Residues in contact with GLN 167 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1632 GLN* 3.2 12.0 + - - +
1642 GLU* 3.4 33.7 - - - +
1652 LEU 3.3 0.2 - - - -
1662 SER* 1.3 80.0 - - - +
1682 TRP* 1.3 61.4 + - + +
1702 VAL* 3.2 19.9 + - - +
1712 ARG* 3.3 12.1 + - - +
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Residues in contact with TRP 168 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
752 GLU* 3.8 5.6 - - + -
762 ASN* 3.1 50.7 - - - -
792 ALA* 3.5 20.3 - - + +
802 TYR* 3.5 13.7 - + + +
832 PHE* 3.7 34.3 - + + -
1642 GLU* 3.2 10.7 + - + +
1652 LEU 3.7 7.4 - - - +
1662 SER 3.2 0.4 - - - -
1672 GLN* 1.3 76.3 - - + +
1692 THR* 1.3 59.5 + - - +
1712 ARG* 3.3 54.5 - - + +
1722 SER* 2.9 41.6 + - - -
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Residues in contact with THR 169 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242 ALA* 3.5 29.1 - - - +
272 ILE* 3.7 24.5 - - + -
282 ARG* 3.6 22.3 - - - +
802 TYR* 3.5 16.4 - - + +
1652 LEU* 3.1 16.5 + - + +
1662 SER* 2.7 19.7 + - - -
1682 TRP* 1.3 77.4 - - - +
1702 VAL* 1.3 59.5 + - - +
1722 SER* 3.8 2.5 - - - -
1732 ILE* 2.9 34.7 + - - +
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Residues in contact with VAL 170 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282 ARG* 3.9 35.9 - - - +
1662 SER 3.6 14.8 - - - +
1672 GLN* 3.2 11.0 + - - +
1682 TRP 3.1 0.4 - - - -
1692 THR* 1.3 74.9 - - - +
1712 ARG* 1.3 62.3 + - - +
1732 ILE* 3.2 9.5 + - - +
1742 HIS* 2.6 53.6 + - + +
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Residues in contact with ARG 171 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
672 LEU* 4.0 12.1 - - - +
752 GLU* 2.7 33.5 + - - +
762 ASN* 4.6 0.4 + - - -
1672 GLN 3.3 9.6 + - - +
1682 TRP* 3.3 48.2 - - + +
1702 VAL* 1.3 79.7 - - - +
1722 SER* 1.3 62.9 + - - +
1742 HIS* 3.0 9.6 + - - +
1752 ASP* 2.9 58.3 + - - +
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Residues in contact with SER 172 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242 ALA* 4.5 2.9 - - - -
762 ASN* 2.8 30.7 + - - +
802 TYR* 2.8 27.1 + - - -
1192 PHE* 3.8 16.2 - - - -
1682 TRP* 2.9 20.7 + - - -
1692 THR* 3.8 5.2 - - - -
1712 ARG* 1.3 76.5 - - - +
1732 ILE* 1.3 57.0 + - - +
1752 ASP* 3.1 2.8 + - - +
1762 LEU* 2.9 36.9 + - - +
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Residues in contact with ILE 173 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212 ILE* 4.5 12.9 - - + +
242 ALA* 3.7 15.0 - - + -
252 ARG* 3.4 65.1 - - + +
282 ARG* 5.0 12.6 - - - +
1692 THR* 2.9 28.0 + - - +
1702 VAL* 3.2 9.6 + - - +
1722 SER* 1.3 75.1 - - - +
1742 HIS* 1.3 65.1 + - + +
1762 LEU* 3.8 6.3 + - - +
1772 ARG* 3.0 41.4 + - - +
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Residues in contact with HIS 174 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722 ARG* 4.0 2.3 + - - +
1702 VAL* 2.6 46.2 + - + +
1712 ARG* 3.0 9.7 + - - +
1732 ILE* 1.3 82.5 - - + +
1752 ASP* 1.3 69.9 + - - +
1772 ARG* 3.2 13.0 + - - +
1782 PHE* 3.2 21.3 + - - +
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Residues in contact with ASP 175 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
672 LEU* 5.4 1.8 - - - +
722 ARG* 3.4 43.3 + - + +
762 ASN* 3.3 20.9 - - - +
1712 ARG* 2.9 52.1 + - - +
1722 SER* 3.7 4.3 - - - +
1742 HIS* 1.3 81.5 - - - +
1762 LEU* 1.3 56.5 + - + +
1782 PHE* 3.5 3.1 + - - +
1792 ILE* 3.0 35.9 + - + +
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Residues in contact with LEU 176 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172 CYS* 3.6 14.8 - - + +
202 SER* 3.5 44.6 - - - +
212 ILE* 3.7 23.8 - - + +
242 ALA* 5.2 0.7 - - + -
732 LEU* 5.1 0.7 - - + -
762 ASN* 5.3 2.0 - - - +
1192 PHE* 4.2 15.9 - - + -
1232 ILE* 4.4 10.5 - - + -
1262 LEU* 4.0 28.0 - - + -
1722 SER* 2.9 25.1 + - - +
1732 ILE 4.2 0.7 - - - +
1752 ASP* 1.3 75.8 - - + +
1772 ARG* 1.3 61.3 + - - +
1792 ILE* 3.4 8.0 + - + -
1802 SER* 3.0 28.9 + - - -
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Residues in contact with ARG 177 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212 ILE* 4.0 15.3 - - + -
252 ARG* 5.2 7.4 - - - +
1732 ILE* 3.0 35.4 - - - +
1742 HIS* 3.2 13.1 + - - +
1762 LEU* 1.3 73.3 - - - +
1782 PHE* 1.3 62.6 + - - +
1802 SER* 3.2 6.6 + - - -
1812 SER* 2.7 36.8 + - - +
1872 PRO 5.3 8.2 + - - -
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Residues in contact with PHE 178 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
672 LEU 4.2 10.8 - - - -
682 THR* 5.7 0.4 - - - -
692 GLU* 4.3 14.4 - - + -
722 ARG* 3.1 60.8 - - - +
1742 HIS 3.2 5.5 + - - +
1752 ASP 3.6 2.2 - - - +
1772 ARG* 1.3 78.0 - - - +
1792 ILE* 1.3 62.1 + - + +
1812 SER* 3.8 3.1 - - - -
1822 HIS* 2.8 68.7 + + - +
----------------------------------------------------------
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Residues in contact with ILE 179 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132 ARG* 2.9 31.7 + - + -
172 CYS* 3.9 14.6 - - - -
692 GLU* 3.9 28.0 - - + +
722 ARG* 4.5 9.2 - - + -
732 LEU* 3.6 34.5 - - + +
1262 LEU* 4.5 5.2 - - + -
1302 LEU* 4.1 19.5 - - + -
1752 ASP* 3.0 22.1 + - + +
1762 LEU* 3.7 9.0 - - + +
1772 ARG 3.1 0.6 - - - -
1782 PHE* 1.3 85.2 - - + +
1802 SER* 1.3 67.1 + - - +
1822 HIS* 3.3 6.0 + - - -
----------------------------------------------------------
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Residues in contact with SER 180 (chain 2).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132 ARG* 3.5 17.9 + - - -
142 ARG* 3.6 38.5 + - - +
172 CYS* 3.7 23.7 - - - -
212 ILE* 5.4 2.6 - - - +
1762 LEU 3.0 14.5 + - - -
1772 ARG* 3.2 12.1 + - - -
1792 ILE* 1.3 77.6 - - - +
1812 SER* 1.3 68.2 + - - +
1822 HIS 3.3 2.9 + - - -
1832 GLN 4.8 1.0 + - - -
1842 THR* 4.5 0.9 + - - -
1872 PRO* 5.6 1.9 - - - +
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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