Contacts of the helix formed by residues 100 - 121 (chain C) in PDB entry 1OGU
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 PRO 100 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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90C PHE* 6.1 0.2 - - + -
98C GLY 3.8 6.3 - - - +
99C ILE* 1.3 92.5 - - + +
101C LEU* 1.3 66.0 + - - +
102C PRO* 4.2 11.2 - - + -
103C LEU* 3.1 20.9 + - + +
104C ILE* 3.2 9.4 + - - +
292C PRO* 6.5 0.4 - - + -
295C HIS* 3.4 36.3 - - + +
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Residues in contact with LEU 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99C ILE 3.5 2.0 + - - +
100C PRO* 1.3 70.7 - - - +
102C PRO* 1.3 73.9 - - + +
104C ILE* 3.0 23.0 + - + +
105C LYS* 2.8 30.8 + - - +
197C VAL* 4.9 4.5 - - + -
254C PRO* 4.6 13.0 - - + +
255C LEU* 4.2 20.2 - - + -
256C ASP* 5.5 8.5 - - - +
285C PHE* 3.8 35.0 - - + -
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Residues in contact with PRO 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C PRO* 3.5 10.3 - - + -
101C LEU* 1.3 93.6 - - + +
103C LEU* 1.3 55.1 + - - +
105C LYS* 3.3 11.7 + - + +
106C SER* 2.9 28.2 + - - -
290C THR* 4.5 11.0 + - - +
292C PRO* 3.7 20.0 - - + +
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Residues in contact with LEU 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90C PHE* 3.7 35.9 - - + -
99C ILE* 3.8 10.5 - - + -
100C PRO* 3.1 22.2 + - + +
102C PRO* 1.3 72.7 - - - +
104C ILE* 1.3 68.7 + - - +
105C LYS 3.1 1.1 + - - -
106C SER* 3.1 2.6 + - - -
107C TYR* 2.7 57.9 + - + +
292C PRO* 3.5 41.3 - - + +
293C VAL 4.5 0.7 - - - +
294C PRO* 3.9 21.3 - - + -
295C HIS* 5.2 3.1 - - + +
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Residues in contact with ILE 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99C ILE* 3.4 33.0 - - + +
100C PRO 3.5 9.4 - - - +
101C LEU* 3.0 23.7 + - + +
103C LEU* 1.3 75.6 - - - +
105C LYS* 1.3 53.1 + - - +
107C TYR* 3.6 1.0 - - - +
108C LEU* 2.8 34.3 + - - +
193C PHE* 3.9 29.8 - - + -
196C MET* 3.7 49.7 - - + +
197C VAL* 3.8 21.8 - - + +
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Residues in contact with LYS 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C LEU* 2.8 20.3 + - - +
102C PRO* 3.3 13.2 - - + +
104C ILE* 1.3 73.7 - - - +
106C SER* 1.3 66.5 + - - +
108C LEU* 3.4 0.6 + - - -
109C PHE* 2.9 26.4 + - - +
256C ASP* 5.8 1.8 + - - -
285C PHE* 3.0 67.4 + - + +
286C PHE* 3.4 15.5 - - + -
288C ASP* 2.6 34.6 + - - +
289C VAL* 4.1 19.7 - - + -
290C THR 5.5 0.2 - - - +
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Residues in contact with SER 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102C PRO 2.9 11.0 + - - -
103C LEU* 3.5 8.2 - - - +
105C LYS* 1.3 74.3 - - - +
107C TYR* 1.3 68.4 + - - +
109C PHE* 2.9 5.7 + - - +
110C GLN* 2.7 51.4 + - - +
139C GLY 4.0 3.3 + - - -
289C VAL* 4.1 6.8 - - - +
290C THR 3.2 25.7 + - - -
291C LYS* 3.9 8.7 - - - +
292C PRO* 3.6 10.4 - - - +
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Residues in contact with TYR 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87C LEU* 4.0 23.3 - - + -
90C PHE* 4.2 9.6 - + - -
99C ILE* 5.6 1.3 - - + -
103C LEU* 2.7 49.9 + - + +
104C ILE 3.6 3.1 - - - +
106C SER* 1.3 74.3 - - - +
108C LEU* 1.3 65.1 + - - +
110C GLN* 3.2 6.0 + - - -
111C LEU* 3.0 28.9 + - - +
135C ILE* 3.6 30.5 - - + +
139C GLY* 3.6 21.9 - - - -
140C ALA 4.3 0.7 + - - -
141C ILE* 3.6 29.7 - - + +
196C MET* 3.8 17.9 - - + -
294C PRO* 3.6 27.9 - - - +
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Residues in contact with LEU 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C ILE 2.8 20.9 + - - +
105C LYS* 4.0 3.1 - - - +
107C TYR* 1.3 73.2 - - - +
109C PHE* 1.3 61.6 + - - +
111C LEU* 3.4 8.2 + - + +
112C LEU* 3.1 33.0 + - + +
189C LEU* 4.5 14.6 - - + +
193C PHE* 3.6 52.5 - - + +
196C MET* 4.3 9.5 - - + +
262C LEU* 3.9 9.6 - - + -
266C MET* 4.0 17.5 - - + -
285C PHE* 4.3 2.5 - - + -
286C PHE* 3.7 21.1 - - + -
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Residues in contact with PHE 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C LYS 2.9 17.9 + - - +
106C SER* 3.1 5.6 - - - +
108C LEU* 1.3 77.1 - - - +
110C GLN* 1.3 65.4 + - + +
112C LEU* 3.2 5.5 + - - +
113C GLN* 3.1 51.3 + - - -
281C LEU* 3.5 43.7 - - + +
286C PHE* 3.4 35.8 - + + -
289C VAL* 3.9 29.2 - - + -
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Residues in contact with GLN 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62C ASN* 3.4 29.8 + - - +
106C SER* 2.7 39.9 + - - +
107C TYR* 4.0 5.9 - - - -
109C PHE* 1.3 77.1 - - + +
111C LEU* 1.3 66.6 + - - +
113C GLN* 3.1 19.2 + - - +
114C GLY 3.0 19.1 + - - -
139C GLY 2.8 18.7 + - - -
140C ALA* 3.1 24.6 - - - +
141C ILE* 3.2 17.5 + - + -
291C LYS* 3.8 14.4 - - + +
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Residues in contact with LEU 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62C ASN* 5.4 0.7 - - - -
107C TYR 3.0 25.8 + - - +
108C LEU* 3.7 9.9 - - + +
110C GLN* 1.3 76.0 - - - +
112C LEU* 1.3 57.4 - - - +
114C GLY* 3.5 1.3 + - - -
115C LEU* 2.8 29.6 + - - +
133C LEU* 3.8 22.2 - - + -
141C ILE* 3.7 38.6 - - + -
142C LYS* 5.0 2.0 - - - +
143C LEU* 3.6 30.5 - - + +
189C LEU* 4.0 29.3 - - + +
192C ILE* 4.8 2.2 - - + -
196C MET* 4.3 13.2 - - + -
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Residues in contact with LEU 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108C LEU* 3.1 34.5 + - + +
109C PHE* 3.6 5.2 - - - +
110C GLN 3.1 0.8 - - - -
111C LEU* 1.3 75.8 - - - +
113C GLN* 1.3 59.8 + - - +
115C LEU* 3.7 1.8 - - - +
116C ALA* 2.9 30.3 + - - +
186C ILE* 4.1 5.2 - - + -
189C LEU* 3.8 22.7 - - + -
262C LEU* 5.1 0.4 - - + -
266C MET* 3.9 13.0 - - + -
277C ALA* 3.8 20.8 - - + +
280C ALA* 3.9 26.9 - - + +
281C LEU* 4.0 13.7 - - + +
286C PHE* 3.5 32.5 - - + -
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Residues in contact with GLN 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60C HIS* 3.8 15.6 + - + +
62C ASN* 3.6 14.5 + - - +
109C PHE* 3.1 48.8 + - + -
110C GLN* 3.1 19.0 + - - +
112C LEU* 1.3 74.4 - - - +
114C GLY* 1.3 60.0 + - - +
116C ALA* 3.5 2.1 + - - +
117C PHE* 3.0 30.5 + - - +
281C LEU* 3.8 25.1 - - + -
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Residues in contact with GLY 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60C HIS* 3.9 9.3 + - - -
62C ASN* 3.9 25.8 - - - -
63C ILE* 3.9 4.0 - - - +
110C GLN 3.0 9.9 + - - -
111C LEU 3.8 2.9 - - - -
113C GLN* 1.3 74.2 - - - +
115C LEU* 1.3 64.2 + - - +
117C PHE* 3.4 3.7 + - - +
118C CYS* 3.0 25.3 + - - -
143C LEU* 4.0 8.1 - - - -
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Residues in contact with LEU 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111C LEU 2.8 21.4 + - - +
112C LEU* 4.2 3.6 - - - +
113C GLN 3.3 0.2 - - - -
114C GLY* 1.3 74.0 - - - +
116C ALA* 1.3 58.3 + - - +
118C CYS* 3.2 11.6 + - + +
119C HIS* 2.8 56.9 + - + +
125C HIS* 4.8 3.8 - - + -
128C LEU* 4.2 10.3 - - + -
143C LEU* 4.0 12.5 - - + +
185C ASP* 3.7 39.5 - - + +
186C ILE* 4.0 14.6 - - + -
189C LEU* 3.8 23.1 - - + -
277C ALA* 4.3 2.0 - - + -
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Residues in contact with ALA 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112C LEU 2.9 21.7 + - - +
113C GLN 3.7 4.5 - - - +
115C LEU* 1.3 76.1 - - - +
117C PHE* 1.3 51.7 + - - +
119C HIS* 3.1 2.5 + - - +
120C SER* 2.7 38.4 + - - -
277C ALA* 3.7 18.1 - - + +
278C LYS* 4.2 13.9 - - + +
281C LEU* 4.2 12.3 - - + -
178D TYR* 4.1 9.0 - - + +
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Residues in contact with PHE 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57C GLU 4.8 1.8 - - - -
58C LEU* 3.9 20.4 - - + -
59C ASN 3.6 33.2 - - - -
60C HIS* 3.2 35.9 - + + +
63C ILE* 4.3 3.1 - - + -
113C GLN 3.0 18.7 + - - +
114C GLY 3.6 5.2 - - - +
115C LEU 3.3 0.2 - - - -
116C ALA* 1.3 72.4 - - - +
118C CYS* 1.3 66.0 + - - +
120C SER* 3.2 5.1 - - - -
121C HIS* 2.7 63.1 + + - -
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Residues in contact with CYS 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58C LEU* 4.0 12.1 - - - -
63C ILE* 3.7 19.1 - - - -
114C GLY 3.0 19.3 + - - -
115C LEU* 3.2 16.4 + - + +
117C PHE* 1.3 74.4 - - - +
119C HIS* 1.3 59.5 + - - +
121C HIS* 2.8 20.3 + - - +
123C VAL* 3.1 34.4 + - + +
125C HIS* 5.5 3.1 - - - +
143C LEU* 3.9 10.3 - - - -
146C PHE* 3.8 28.0 - - - -
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Residues in contact with HIS 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115C LEU* 2.8 44.7 + - + +
116C ALA 3.1 1.1 + - - +
118C CYS* 1.3 73.2 - - - +
120C SER* 1.3 62.0 + - - +
122C ARG* 3.0 16.2 + - - +
123C VAL 3.3 15.2 + - - +
124C LEU* 4.1 2.0 - - + -
152C PHE* 3.9 3.0 - - - -
182C THR* 3.2 50.5 + - + +
185C ASP* 3.0 30.0 - - + +
186C ILE* 5.2 3.1 - - + -
277C ALA* 4.6 5.2 - - + -
178D TYR* 3.7 35.1 - + + -
182D ILE* 3.8 12.8 - - - +
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Residues in contact with SER 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116C ALA 2.7 21.3 + - - -
117C PHE* 3.2 12.6 - - - -
119C HIS* 1.3 71.4 - - - +
121C HIS* 1.3 74.2 + - - -
122C ARG 3.4 0.2 - - - -
178D TYR* 3.8 13.4 - - - -
181D ASP* 3.1 28.3 + - - +
182D ILE* 3.6 26.2 + - - +
185D TYR* 4.7 2.3 - - - +
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Residues in contact with HIS 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57C GLU* 5.3 5.2 - - + +
58C LEU* 4.1 13.0 - - + -
117C PHE* 2.7 63.9 + + - +
118C CYS 2.8 10.3 + - - +
120C SER* 1.3 86.2 - - - +
122C ARG* 1.3 95.0 + - - +
123C VAL* 3.2 5.6 + - + +
182D ILE* 4.9 0.2 - - - -
185D TYR* 3.3 51.7 - + + +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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