Contacts of the helix formed by residues 82 - 111 (chain 8) 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 SER 82 (chain 8).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308 TYR* 3.3 8.3 + - - -
808 TRP* 3.3 1.7 - - - +
818 GLU* 1.3 79.6 - - - +
838 PRO* 1.4 71.5 - - - +
848 LEU* 3.7 12.5 + - - +
858 LYS* 3.0 28.7 + - - +
868 ALA* 2.9 27.4 + - - +
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Residues in contact with PRO 83 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308 TYR* 3.8 7.0 - - + +
318 PHE* 3.6 29.4 - - + -
348 LEU* 4.1 10.5 - - + -
368 LEU* 4.1 16.8 - - + -
398 PHE* 5.2 0.9 - - + -
828 SER* 1.4 86.6 - - - +
848 LEU* 1.3 59.7 + - - +
868 ALA* 3.4 5.0 + - + +
878 PHE* 3.1 21.0 + - - +
1418 LEU* 3.5 18.1 - - + +
1518 LEU* 4.3 26.7 - - + -
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Residues in contact with LEU 84 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
828 SER* 3.1 10.5 + - - +
838 PRO* 1.3 80.6 - - - +
858 LYS* 1.3 61.4 + - + +
878 PHE* 3.5 2.9 + - - +
888 GLU* 3.1 47.9 + - - +
1388 LEU* 3.9 8.2 - - + +
1418 LEU* 3.8 26.5 - - + +
1428 LYS* 3.6 45.5 - - + +
1458 LYS* 5.0 15.3 - - + -
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Residues in contact with LYS 85 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808 TRP* 3.8 7.7 - - + -
818 GLU* 4.3 29.2 - - + +
828 SER* 3.0 27.5 + - - +
848 LEU* 1.3 83.7 - - + +
868 ALA* 1.3 61.1 + - - +
888 GLU* 3.4 27.8 + - - +
898 ALA* 3.2 21.8 + - - +
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Residues in contact with ALA 86 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278 MET* 3.5 20.0 - - + +
308 TYR* 3.8 23.8 - - + -
318 PHE* 4.0 14.1 - - + -
808 TRP* 3.8 20.8 - - + +
828 SER 2.9 12.4 + - - +
838 PRO 3.5 9.4 - - - +
848 LEU 3.2 0.2 - - - -
858 LYS* 1.3 77.2 - - - +
878 PHE* 1.3 58.3 + - - +
898 ALA* 3.5 1.7 + - - +
908 ALA* 3.2 19.1 + - - +
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Residues in contact with PHE 87 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
318 PHE* 3.8 9.4 - + - -
398 PHE* 3.6 28.7 - + - -
428 TRP* 4.2 16.8 - + + -
438 MET* 3.7 30.5 - - + -
838 PRO 3.1 14.8 + - - +
848 LEU 4.1 2.2 - - - +
868 ALA* 1.3 74.1 - - - +
888 GLU* 1.3 60.6 + - - +
908 ALA* 3.5 5.5 - - + +
918 TYR* 2.9 30.7 + - - +
1348 VAL* 3.7 33.9 - - + +
1378 ILE* 3.7 38.8 - - + -
1388 LEU* 3.6 12.1 - - + +
1418 LEU* 3.7 24.0 - - + -
1588 LEU* 4.9 1.3 - - + -
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Residues in contact with GLU 88 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
848 LEU* 3.1 41.3 + - - +
858 LYS* 3.4 38.0 + - - +
878 PHE* 1.3 78.1 - - - +
898 ALA* 1.3 57.0 + - - +
918 TYR* 3.6 3.3 + - - +
928 GLU* 3.1 28.3 + - - +
1388 LEU* 3.7 24.6 - - + +
1428 LYS* 4.3 12.5 - - - -
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Residues in contact with ALA 89 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238 LEU* 5.3 0.5 - - - +
278 MET* 4.3 6.4 - - + +
808 TRP* 3.6 29.6 - - + +
858 LYS 3.2 10.2 + - - +
868 ALA 3.7 3.4 - - - +
878 PHE 3.3 0.4 - - - -
888 GLU* 1.3 77.6 - - - +
908 ALA* 1.3 58.5 + - - +
928 GLU* 3.6 13.2 + - - +
938 HIS* 3.0 27.7 + - - +
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Residues in contact with ALA 90 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248 TYR* 3.9 16.2 + - + +
278 MET* 3.8 22.6 - - + +
438 MET* 4.8 5.8 - - + -
868 ALA 3.2 13.8 + - - +
878 PHE* 3.3 13.0 + - + +
898 ALA* 1.3 75.6 - - - +
918 TYR* 1.3 59.1 + - - +
938 HIS* 3.3 5.9 + - - +
948 GLU* 2.8 32.6 + - - +
1348 VAL* 4.1 12.3 - - + -
----------------------------------------------------------
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Residues in contact with TYR 91 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14 MET* 3.5 24.8 + - + +
654 ASN* 4.7 5.4 + - - +
878 PHE 2.9 16.1 + - - +
888 GLU 3.9 2.9 - - - +
908 ALA* 1.3 73.3 - - - +
928 GLU* 1.3 63.8 + - - +
948 GLU* 3.3 5.3 + - + +
958 LYS* 3.2 51.5 + - + +
1318 GLU* 3.7 47.9 + - + -
1348 VAL* 3.7 10.2 - - + +
1358 LYS* 3.6 38.7 - - + +
1388 LEU* 3.6 22.9 - - + -
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Residues in contact with GLU 92 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
888 GLU 3.1 19.4 + - - +
898 ALA* 3.7 11.4 - - - +
918 TYR* 1.3 78.5 - - - +
938 HIS* 1.3 57.2 + - - +
958 LYS* 3.5 16.6 + - - +
968 PHE* 3.2 23.0 + - - +
----------------------------------------------------------
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Residues in contact with HIS 93 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168 ARG 5.1 0.7 - - - -
198 TYR* 3.9 28.1 - + - -
208 SER* 2.9 34.7 + - - -
238 LEU* 3.6 25.0 - - + +
248 TYR* 4.5 11.9 - + - -
898 ALA 3.0 18.8 + - - +
908 ALA* 3.3 5.6 + - - +
928 GLU* 1.3 73.9 - - - +
948 GLU* 1.3 62.5 + - - +
968 PHE* 3.2 32.2 + + - +
978 ILE* 2.9 37.3 + - + +
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Residues in contact with GLU 94 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208 SER* 5.6 0.5 + - - -
248 TYR* 2.6 28.6 + - - +
468 GLN* 5.6 0.3 - - - -
508 GLU* 3.8 2.3 - - - +
908 ALA 2.8 20.1 + - - +
918 TYR* 3.6 8.7 - - + +
928 GLU 3.3 0.2 - - - -
938 HIS* 1.3 80.0 - - - +
958 LYS* 1.3 55.3 + - - +
978 ILE* 3.5 6.6 + - - +
988 SER* 3.0 31.8 + - - -
1278 GLN* 2.8 31.1 - - - +
1308 GLU* 3.0 38.3 - - - +
1318 GLU* 4.0 16.4 + - + -
1348 VAL* 4.1 17.7 - - + +
----------------------------------------------------------
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Residues in contact with LYS 95 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14 MET* 4.4 17.9 - - + +
918 TYR* 3.2 47.7 + - + +
928 GLU* 3.8 15.9 - - - +
938 HIS 3.3 0.2 - - - -
948 GLU* 1.3 74.5 - - - +
968 PHE* 1.3 59.4 + - - +
988 SER* 3.7 6.9 - - - -
998 LYS* 2.9 31.4 + - - +
1318 GLU* 3.7 21.5 - - - +
----------------------------------------------------------
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Residues in contact with PHE 96 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168 ARG* 4.2 27.1 - - + -
198 TYR* 6.0 1.8 - + - -
928 GLU 3.2 14.0 + - - +
938 HIS* 3.2 37.8 + + - +
958 LYS* 1.3 75.6 - - - +
978 ILE* 1.3 74.8 + - + +
998 LYS* 3.5 8.8 + - + +
1008 SER* 3.2 23.3 + - - -
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Residues in contact with ILE 97 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138 GLN* 3.9 6.1 - - - +
168 ARG* 3.8 24.7 - - + +
178 GLU* 3.8 17.5 - - - +
208 SER* 3.4 26.7 - - - +
508 GLU* 5.7 1.1 - - - +
938 HIS* 2.9 36.5 + - + +
948 GLU* 3.9 9.6 - - - +
958 LYS 3.4 0.2 - - - -
968 PHE* 1.3 83.6 - - + +
988 SER* 1.3 64.7 + - - +
1008 SER* 2.6 18.7 + - - +
1018 ILE* 3.0 12.3 + - + +
1278 GLN* 3.5 29.6 - - - +
----------------------------------------------------------
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Residues in contact with SER 98 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
948 GLU 3.0 14.8 + - - -
958 LYS* 3.7 5.2 - - - -
968 PHE 3.4 0.2 - - - -
978 ILE* 1.3 77.6 - - - +
998 LYS* 1.3 56.1 + - - +
1018 ILE* 3.3 9.1 + - - +
1028 TYR* 3.0 49.6 + - - -
1278 GLN* 3.4 27.7 + - - +
1318 GLU* 2.7 29.2 + - - -
----------------------------------------------------------
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Residues in contact with LYS 99 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
958 LYS 2.9 18.6 + - - +
968 PHE* 3.7 10.5 - - + +
988 SER* 1.3 77.4 - - - +
1008 SER* 1.3 56.6 + - - +
1028 TYR* 3.2 17.7 + - + +
1038 GLU* 3.0 47.5 + - + +
----------------------------------------------------------
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Residues in contact with SER 100 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138 GLN* 3.0 23.3 + - - -
168 ARG* 3.8 26.0 + - - -
968 PHE* 3.2 14.5 + - - -
978 ILE* 2.6 28.1 + - - -
998 LYS* 1.3 74.7 - - - +
1018 ILE* 1.3 56.3 + - - +
1038 GLU* 3.9 13.3 - - - +
1048 LEU* 3.2 30.8 + - - +
----------------------------------------------------------
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Residues in contact with ILE 101 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138 GLN* 3.7 32.3 - - + +
178 GLU* 4.6 3.4 - - - +
578 PHE* 4.1 10.3 - - + -
978 ILE* 3.0 21.8 + - + +
988 SER* 3.5 9.9 - - - +
998 LYS 3.2 0.2 - - - -
1008 SER* 1.3 75.8 - - - +
1028 TYR* 1.3 62.5 + - + +
1048 LEU* 3.3 5.7 + - + +
1058 ALA* 2.9 27.2 + - - +
1208 LEU* 4.1 12.1 - - + +
1238 PHE* 4.1 20.4 - - + +
1248 ILE* 3.8 37.9 - - + +
1278 GLN* 4.5 14.8 - - + -
----------------------------------------------------------
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Residues in contact with TYR 102 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
644 ARG* 3.5 15.7 + - - -
1124 LYS 5.4 3.4 - - - -
1134 ASP* 5.4 0.8 + - - -
1144 TYR* 3.6 48.8 - + + -
1154 SER* 2.6 27.7 + - - -
988 SER* 3.0 39.2 + - - -
998 LYS* 3.4 17.3 - - + +
1018 ILE* 1.3 81.9 - - + +
1038 GLU* 1.3 56.4 + - + +
1058 ALA* 3.2 7.7 + - - +
1068 ALA* 3.0 28.1 + - - +
1248 ILE* 4.4 9.9 - - + -
1318 GLU* 4.8 0.5 + - - -
----------------------------------------------------------
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Residues in contact with GLU 103 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168 ARG* 5.5 4.3 + - - -
998 LYS* 3.0 40.6 + - + +
1008 SER* 3.9 13.1 - - - +
1028 TYR* 1.3 75.9 - - + +
1048 LEU* 1.3 57.7 + - - +
1068 ALA* 3.5 7.0 + - - +
1078 LEU* 3.0 28.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 104 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68 MET* 4.2 17.6 - - - +
98 ALA* 3.8 36.1 - - + +
108 LEU* 4.2 11.4 - - + -
138 GLN* 3.6 39.7 - - + +
168 ARG* 5.2 2.5 - - - +
578 PHE* 4.5 2.5 - - + -
1008 SER 3.2 16.0 + - - +
1018 ILE* 3.5 8.7 - - + +
1038 GLU* 1.3 76.3 - - - +
1058 ALA* 1.3 58.8 + - - +
1078 LEU* 3.4 6.6 + - + +
1088 ALA* 3.0 28.8 + - - +
1208 LEU* 3.6 24.3 - - + +
----------------------------------------------------------
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Residues in contact with ALA 105 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1144 TYR* 3.7 26.7 - - + -
1018 ILE 2.9 13.7 + - - +
1028 TYR* 3.2 10.7 + - - +
1048 LEU* 1.3 76.0 - - - +
1068 ALA* 1.3 56.7 + - - +
1088 ALA 3.5 0.5 + - - -
1098 GLU* 3.1 32.6 + - - +
1178 ARG* 3.6 19.2 - - - +
1208 LEU* 3.8 12.0 - - + +
1248 ILE* 4.5 9.4 - - + -
----------------------------------------------------------
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Residues in contact with ALA 106 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1144 TYR* 3.5 19.7 + - + +
1028 TYR 3.0 13.9 + - - +
1038 GLU* 3.8 8.1 - - - +
1058 ALA* 1.3 75.5 - - - +
1078 LEU* 1.3 58.4 + - - +
1098 GLU* 3.3 6.1 + - - +
1108 GLU* 2.9 31.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 107 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58 ARG* 4.2 33.9 - - + +
68 MET* 3.6 18.6 - - + +
98 ALA* 3.8 29.2 - - + -
1038 GLU 3.0 17.7 + - - +
1048 LEU* 3.7 7.4 - - + +
1058 ALA 3.4 0.2 - - - -
1068 ALA* 1.3 75.8 - - - +
1088 ALA* 1.3 60.2 + - - +
1108 GLU* 4.0 17.2 - - - +
1118 GLU* 3.3 33.0 + - + +
----------------------------------------------------------
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Residues in contact with ALA 108 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68 MET* 3.7 16.3 - - + +
1048 LEU 3.0 16.9 + - - +
1058 ALA* 3.7 6.3 - - - +
1078 LEU* 1.3 76.1 - - - +
1098 GLU* 1.3 61.0 + - - +
1118 GLU 3.6 0.5 + - - -
1128 LYS 3.2 2.4 + - - -
1138 ASP* 2.9 47.7 + - - +
1168 THR* 4.1 9.0 - - + -
1178 ARG* 3.9 20.6 - - - +
1208 LEU* 4.5 0.7 - - + -
----------------------------------------------------------
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Residues in contact with GLU 109 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1144 TYR* 2.8 31.9 + - - -
1058 ALA 3.1 18.7 + - - +
1068 ALA* 3.3 4.9 + - - +
1088 ALA* 1.3 74.0 - - - +
1108 GLU* 1.3 64.6 + - - +
1128 LYS* 3.3 16.7 + - - +
1178 ARG* 3.0 35.7 + - + +
1099 GLU* 6.1 0.7 - - - +
----------------------------------------------------------
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Residues in contact with GLU 110 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1068 ALA 2.9 17.1 + - - +
1078 LEU* 4.0 21.3 - - - +
1098 GLU* 1.3 79.8 - - - +
1118 GLU* 1.3 60.4 + - + +
1128 LYS* 3.2 6.8 + - - +
----------------------------------------------------------
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Residues in contact with GLU 111 (chain 8).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38 SER* 2.7 34.7 + - - -
58 ARG* 3.9 24.9 - - - +
68 MET* 4.0 14.8 + - - +
1078 LEU* 3.3 24.8 + - + +
1088 ALA 3.6 2.2 + - - +
1098 GLU 3.3 0.2 - - - -
1108 GLU* 1.3 79.2 - - + +
1128 LYS* 1.3 68.7 + - - +
1138 ASP* 3.3 11.2 + - + +
----------------------------------------------------------
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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