Contacts of the helix formed by residues 114 - 132 (chain 2) in PDB entry 1ILN
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 ILE 114 (chain 2).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282 ILE* 4.3 11.2 - - + -
362 LEU* 4.3 11.0 - - + -
392 MET* 3.7 23.1 - - + +
402 LEU* 3.6 42.8 - - + +
422 PHE 4.1 0.9 - - - +
442 PHE* 3.4 32.8 - - + -
662 LEU* 3.5 22.6 - - + +
702 LEU* 4.4 12.3 - - + -
1132 THR* 1.3 80.9 + - - +
1152 VAL* 1.4 67.8 + - + +
1162 GLU 3.1 0.9 + - - -
1172 PHE* 3.2 18.7 + - - +
1182 LEU* 3.8 11.6 + - - +
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Residues in contact with VAL 115 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252 LEU* 3.5 22.2 - - + +
282 ILE* 4.7 1.6 - - + -
292 ASN* 3.1 38.8 - - + +
402 LEU* 3.5 20.4 - - + -
1132 THR* 4.3 8.9 - - + +
1142 ILE* 1.4 80.3 - - + +
1162 GLU* 1.3 73.6 - - + +
1182 LEU* 3.5 2.1 + - - -
1192 ASN* 2.9 30.2 + - - +
177G SER 4.1 1.8 - - - +
178G ALA* 4.1 19.7 - - + -
179G GLN* 4.5 7.2 - - + +
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Residues in contact with GLU 116 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
462 MET* 3.8 0.3 - - - +
1122 ALA* 3.7 1.5 - - - -
1132 THR* 3.1 42.0 + - + +
1152 VAL* 1.3 84.3 - - + +
1172 PHE* 1.3 56.0 + - - +
1192 ASN* 3.2 1.9 + - - -
1202 ARG* 2.8 36.9 + - - +
69G TYR* 3.6 16.5 - - + -
91G LYS* 2.5 52.9 + - - +
93G GLN* 3.2 36.3 + - + +
178G ALA* 5.5 0.2 - - - -
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Residues in contact with PHE 117 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
442 PHE* 5.5 7.2 - - + -
452 TYR 4.3 6.7 - - - +
472 PRO* 3.6 25.1 - - + -
582 CYS 3.6 12.3 - - - -
592 LEU* 3.8 5.4 - - + -
622 GLU* 3.6 11.0 - - + -
632 LEU* 3.5 40.2 - - + -
662 LEU* 3.7 22.7 - - + -
1122 ALA* 5.4 0.2 - - + -
1132 THR 3.8 5.3 + - - +
1142 ILE* 3.2 12.2 + - - +
1162 GLU* 1.3 78.1 - - - +
1182 LEU* 1.3 71.1 + - + +
1202 ARG* 3.1 13.7 + - - +
1212 TRP* 2.9 47.8 + + - -
69G TYR* 3.3 27.8 + - - +
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Residues in contact with LEU 118 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212 LEU* 4.5 8.0 - - + +
242 ILE* 3.5 42.8 - - + -
252 LEU* 3.8 36.3 - - + -
282 ILE* 4.2 4.3 - - + -
632 LEU* 5.1 4.9 - - + -
662 LEU* 4.2 8.3 - - + -
702 LEU* 4.1 14.4 - - + -
892 ILE* 6.0 0.9 - - + -
1142 ILE 3.9 9.9 - - - +
1152 VAL 3.5 4.5 + - - +
1162 GLU 3.3 0.2 - - - -
1172 PHE* 1.3 93.1 - - + +
1192 ASN* 1.4 60.0 - - - +
1212 TRP* 2.8 27.3 + - + +
1222 ILE* 2.8 20.6 + - - +
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Residues in contact with ASN 119 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252 LEU* 3.6 10.4 - - + +
1152 VAL 2.9 18.8 + - - +
1162 GLU* 3.2 5.6 + - - +
1182 LEU* 1.4 76.3 - - - +
1202 ARG* 1.3 55.6 + - - +
1222 ILE* 4.1 2.0 - - - -
1232 THR* 2.7 50.8 + - - -
11G VAL* 5.7 0.4 - - - +
68G LEU* 4.4 2.2 - - - +
93G GLN* 2.8 25.8 + - - +
171G PHE* 3.3 26.2 - - - -
176G GLY* 3.2 30.7 - - - +
178G ALA* 4.1 16.7 - - + +
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Residues in contact with ARG 120 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
472 PRO* 2.8 25.6 + - - +
482 LYS 2.6 28.9 + - - -
502 ALA* 2.6 40.2 + - - +
512 THR* 4.7 3.0 - - - +
1162 GLU 2.8 18.0 + - - +
1172 PHE 3.3 8.7 - - - +
1182 LEU 3.0 0.2 - - - -
1192 ASN* 1.3 78.8 - - - +
1212 TRP* 1.4 66.7 + - - +
1232 THR* 5.0 2.2 - - - -
1242 PHE* 2.9 21.9 + - - +
67G HIS* 4.2 6.9 + - - +
68G LEU* 5.8 4.5 - - + -
69G TYR* 3.3 40.6 - - + -
93G GLN* 4.4 3.8 - - - +
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Residues in contact with TRP 121 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212 LEU* 3.4 26.4 - - + +
472 PRO* 3.3 29.6 - - + -
502 ALA* 3.5 33.0 - - + -
552 HIS 4.7 1.1 - - - -
562 LEU* 3.7 16.4 - - + -
582 CYS* 4.5 1.3 - - + -
592 LEU* 3.7 48.3 - - + +
1172 PHE* 2.9 55.4 + + - -
1182 LEU* 2.8 14.4 + - + +
1202 ARG* 1.4 90.2 - - - +
1222 ILE* 1.3 53.9 + - - +
1242 PHE* 3.3 20.8 - + + -
1252 ALA* 2.7 36.3 + - - +
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Residues in contact with ILE 122 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182 LEU* 3.7 12.8 - - + -
212 LEU* 3.5 15.0 - - + +
222 GLN* 3.5 41.1 - - + +
252 LEU* 3.5 30.1 - - + -
1182 LEU 2.8 14.8 + - - +
1192 ASN* 3.7 2.9 - - - +
1212 TRP* 1.3 73.6 - - - +
1232 THR* 1.3 57.7 + - - +
1252 ALA* 2.9 1.4 + - - +
1262 GLN* 2.8 48.9 + - - +
173G PRO* 3.4 29.4 - - + -
176G GLY* 3.7 10.8 - - - -
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Residues in contact with THR 123 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1192 ASN* 2.7 36.6 + - - -
1202 ARG* 5.0 1.3 - - - -
1222 ILE* 1.3 73.6 - - - +
1242 PHE* 1.4 56.6 + - - +
1262 GLN* 4.1 6.1 - - + +
1272 SER* 2.9 30.0 + - - -
68G LEU* 4.4 13.5 - - + -
126G CYS* 3.4 43.5 - - + +
171G PHE* 3.4 19.9 - - + -
173G PRO* 3.4 6.4 - - + +
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Residues in contact with PHE 124 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142 LEU* 4.1 22.2 - - + -
172 LEU* 5.2 3.6 - - + -
212 LEU* 5.4 0.2 - - + -
502 ALA 3.6 18.2 - - - -
512 THR* 3.5 31.0 - - + -
522 GLU* 4.2 4.9 - - - -
532 LEU* 4.0 23.1 - - + -
562 LEU* 4.1 25.4 - - + -
1202 ARG* 2.9 31.6 + - - +
1212 TRP* 3.3 20.6 - + + +
1232 THR* 1.4 76.5 - - - +
1252 ALA* 1.3 70.5 + - + +
1272 SER* 2.9 6.6 + - - -
1282 ILE* 2.8 44.5 + - + +
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Residues in contact with ALA 125 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142 LEU* 3.7 27.4 - - + -
182 LEU* 4.2 17.3 - - + -
212 LEU* 4.1 12.8 - - + -
1212 TRP 2.7 23.3 + - - +
1222 ILE 3.6 2.5 - - - +
1242 PHE* 1.3 77.8 - - + +
1262 GLN* 1.3 55.2 + - - +
1282 ILE 3.0 2.9 + - - -
1292 ILE* 2.7 43.8 + - - +
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Residues in contact with GLN 126 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182 LEU* 3.4 20.6 - - + +
1222 ILE* 2.8 22.0 + - - +
1232 THR* 4.1 5.1 - - - +
1252 ALA* 1.3 78.3 - - - +
1272 SER* 1.3 57.5 + - - +
1292 ILE* 3.9 6.9 - - - +
1302 SER* 2.7 42.6 + - - +
125G HIS 5.4 6.0 + - - +
126G CYS 5.5 1.7 + - - +
128G GLU* 3.7 20.0 - - - +
173G PRO* 2.9 33.5 + - - +
174G LEU* 2.6 41.9 + - - +
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Residues in contact with SER 127 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1232 THR 2.9 22.7 + - - -
1242 PHE* 2.9 7.4 + - - -
1262 GLN* 1.3 77.4 - - - +
1282 ILE* 1.4 67.2 + - - +
1292 ILE 3.1 0.7 - - - -
1302 SER* 5.0 0.4 - - - -
1312 THR* 2.8 48.4 + - - -
125G HIS* 4.7 15.7 + - - +
126G CYS* 4.7 13.8 - - - -
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Residues in contact with ILE 128 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102 THR* 5.0 7.0 - - + -
112 GLN* 5.5 1.0 - - - -
142 LEU* 3.4 22.7 - - + +
512 THR* 3.4 33.9 - - + +
522 GLU* 5.7 1.1 - - - -
532 LEU* 5.3 4.3 - - + -
1242 PHE* 2.8 33.2 + - + +
1252 ALA 3.3 2.9 - - - -
1272 SER* 1.4 83.8 - - - +
1292 ILE* 1.3 58.0 + - - +
1312 THR* 5.2 2.7 - - - -
1322 LEU* 3.6 32.9 - - + +
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Residues in contact with ILE 129 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112 GLN* 4.0 23.9 - - + +
142 LEU* 3.7 22.2 - - + +
152 GLU* 3.5 37.9 - - + +
182 LEU* 3.9 20.9 - - + -
1252 ALA 2.7 29.5 + - - +
1262 GLN* 3.8 2.9 - - - +
1282 ILE* 1.3 77.2 - - - +
1302 SER* 1.3 65.8 + - - +
1312 THR 3.2 2.0 - - - -
1322 LEU* 2.8 22.2 + - - +
1332 THR 2.9 20.3 + - - +
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Residues in contact with SER 130 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1262 GLN* 2.7 31.6 + - - +
1272 SER* 4.5 0.7 - - - -
1292 ILE* 1.3 81.8 - - - +
1312 THR* 1.3 62.3 + - - +
1322 LEU 3.3 0.2 - - - -
1332 THR 3.6 13.1 - - - +
125G HIS* 5.5 6.5 - - - -
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Residues in contact with THR 131 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1272 SER* 2.8 26.2 + - - -
1282 ILE* 5.2 3.4 - - - -
1302 SER* 1.3 78.8 - - - +
1322 LEU* 1.3 62.0 + - - +
125G HIS* 2.9 43.9 + - + +
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Residues in contact with LEU 132 (chain 2).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62 SER* 3.6 20.4 - - - +
72 THR* 4.1 2.9 - - - +
102 THR* 3.2 44.2 - - + +
112 GLN* 5.2 3.4 - - + +
1272 SER 4.2 0.2 + - - -
1282 ILE* 3.6 28.7 - - + +
1292 ILE* 2.8 8.9 + - - +
1312 THR* 1.3 83.3 - - - +
1332 THR* 1.3 76.0 + - - +
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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