Contacts of the helix formed by residues 91 - 115 (chain B) in PDB entry 7CR3
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 TRP 91 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90B GLY* 1.3 68.6 - - - +
92B ALA* 1.3 58.2 + - - +
93B PHE* 3.1 2.7 - - - +
94B ILE* 2.9 51.4 + - + +
95B TYR* 3.9 1.6 + - - +
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Residues in contact with ALA 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B VAL* 3.7 37.2 - - + +
88B PRO* 3.5 28.7 - - + -
89B ARG* 4.8 1.8 - - + +
90B GLY 3.0 4.1 + - - +
91B TRP* 1.3 76.5 - - - +
93B PHE* 1.3 61.1 + - - +
94B ILE 3.0 1.4 + - - -
95B TYR* 3.1 14.6 + - - +
96B HIS* 3.0 21.1 + - + -
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Residues in contact with PHE 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230A LYS* 4.9 23.8 - - - -
88B PRO* 3.5 34.8 - - + -
89B ARG 4.3 11.4 - - - -
90B GLY* 3.3 18.1 + - - +
91B TRP 3.1 1.0 - - - -
92B ALA* 1.3 77.8 - - - +
94B ILE* 1.3 60.1 + - + +
96B HIS* 4.0 12.9 - + + +
97B ALA* 2.8 29.8 + - - +
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Residues in contact with ILE 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B TRP* 2.9 47.4 + - + +
93B PHE* 1.3 78.3 - - + +
95B TYR* 1.3 60.6 + - - +
97B ALA* 3.2 8.8 + - + +
98B TYR* 2.9 53.0 + - + +
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Residues in contact with TYR 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B VAL* 4.2 19.7 - - + -
85B LEU* 3.6 30.8 - - + +
91B TRP 3.9 1.0 + - - -
92B ALA* 3.1 8.9 + - - +
94B ILE* 1.3 78.3 - - - +
96B HIS* 1.3 104.9 + + - +
98B TYR* 3.1 17.6 + - + +
99B VAL* 3.1 26.9 + - + +
136B VAL* 5.7 7.0 - - + +
140B GLU* 3.7 23.2 + - - +
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Residues in contact with HIS 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B VAL 3.2 20.3 + - - -
85B LEU* 3.8 17.7 + - + -
88B PRO* 4.6 13.8 - - + +
92B ALA* 3.0 31.6 + - + +
93B PHE* 4.0 12.8 - + + +
95B TYR* 1.3 98.2 - + - +
97B ALA* 1.3 56.9 + - - +
99B VAL* 3.1 11.5 - - - +
100B PHE* 2.9 29.3 + - - +
211B MET* 3.5 24.4 - - + +
213B ARG* 5.5 10.6 - - - -
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Residues in contact with ALA 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B PHE 2.8 20.5 + - - +
94B ILE* 3.4 13.2 - - + +
95B TYR 3.1 0.2 - - - -
96B HIS* 1.3 77.5 - - - +
98B TYR* 1.3 64.4 + - + +
100B PHE* 3.2 6.5 + - - +
101B LEU* 2.8 42.7 + - + +
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Residues in contact with TYR 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B ILE* 2.9 34.5 + - + +
95B TYR* 3.1 11.2 + - + +
97B ALA* 1.3 82.9 - - + +
99B VAL* 1.3 57.1 + - - +
101B LEU* 3.4 15.2 + - + +
102B LEU* 3.0 27.5 + - - +
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Residues in contact with VAL 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B TYR* 3.1 25.0 + - + +
96B HIS* 3.1 28.5 - - - +
98B TYR* 1.3 74.3 - - - +
100B PHE* 1.3 64.6 + - - +
102B LEU* 4.1 9.4 - - + -
103B VAL* 3.0 25.3 + - + +
136B VAL* 4.3 17.9 - - + -
137B PHE* 3.6 30.7 - - + -
140B GLU* 5.0 4.5 - - - +
210B ARG* 6.3 0.4 - - - +
211B MET* 4.3 14.1 - - + -
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Residues in contact with PHE 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96B HIS 2.9 19.3 + - - +
97B ALA* 3.2 8.7 + - - +
99B VAL* 1.3 78.4 - - - +
101B LEU* 1.3 71.9 + - + +
103B VAL* 3.2 9.6 - - + +
104B PHE* 2.9 50.5 + + + +
208B MET* 3.5 32.5 - - + -
211B MET* 3.9 29.8 - - + -
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Residues in contact with LEU 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97B ALA* 2.8 38.7 + - + +
98B TYR* 3.9 15.0 - - + +
100B PHE* 1.3 83.9 - - + +
102B LEU* 1.3 57.2 + - - +
104B PHE* 3.8 5.6 - - - +
105B SER* 2.9 34.6 + - - +
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Residues in contact with LEU 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98B TYR 3.0 17.4 + - - +
99B VAL* 3.6 11.0 - - + +
100B PHE 3.2 0.4 - - - -
101B LEU* 1.3 77.1 - - - +
103B VAL* 1.3 62.3 + - - +
105B SER* 3.3 4.8 + - - -
106B CYS* 3.0 21.5 + - - +
129B LEU* 4.0 22.0 - - + +
132B VAL* 4.8 13.0 - - + -
133B THR* 3.7 38.1 - - - +
136B VAL* 4.4 22.7 - - + -
137B PHE* 5.8 0.2 - - + -
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Residues in contact with VAL 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B VAL* 3.0 16.5 + - + +
100B PHE* 3.2 17.7 - - + +
102B LEU* 1.3 76.9 - - - +
104B PHE* 1.3 60.6 + - - +
106B CYS* 3.3 11.0 + - + +
107B LEU* 3.0 27.8 + - + +
133B THR* 4.8 5.4 - - + +
137B PHE* 4.2 20.2 - - + -
204B GLN* 5.2 2.8 - - + +
207B ARG* 3.8 41.3 - - + +
208B MET* 4.4 18.6 - - - -
211B MET* 6.1 5.6 - - + -
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Residues in contact with PHE 104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240A PHE* 3.8 37.0 - + - -
100B PHE* 2.9 34.5 + + + +
101B LEU* 3.8 7.0 - - - +
103B VAL* 1.3 76.5 - - + +
105B SER* 1.3 60.5 + - - +
107B LEU* 3.1 14.3 + - + +
108B VAL* 2.9 44.7 + - + +
208B MET* 3.8 25.8 - - + -
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Residues in contact with SER 105 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101B LEU* 2.9 19.0 + - - +
102B LEU* 3.8 4.9 - - - -
104B PHE* 1.3 72.7 - - - +
106B CYS* 1.3 61.0 + - - +
108B VAL* 3.8 7.9 - - - +
109B LEU* 2.9 38.6 + - - +
129B LEU* 4.8 12.8 - - - -
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Residues in contact with CYS 106 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102B LEU 3.0 14.1 + - - +
103B VAL* 3.4 16.2 - - - +
104B PHE 3.2 0.4 - - - -
105B SER* 1.3 75.9 - - - +
107B LEU* 1.3 59.1 + - - +
109B LEU* 3.9 4.6 - - - +
110B SER* 2.9 26.2 + - - -
126B LEU* 4.3 12.3 - - - +
129B LEU* 3.8 20.0 - - + +
130B GLU* 5.3 6.5 - - - -
133B THR* 4.9 15.3 - - + -
204B GLN* 2.9 38.6 - - - -
207B ARG* 5.1 6.3 - - - -
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Residues in contact with LEU 107 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240A PHE* 4.7 9.0 - - + -
244A ILE* 4.6 22.0 - - + -
264A TYR* 6.4 0.4 - - + -
268A LEU* 5.7 3.6 - - + -
103B VAL* 3.0 13.5 + - + +
104B PHE* 3.1 15.9 + - + +
106B CYS* 1.3 77.0 - - - +
108B VAL* 1.3 67.2 + - + +
110B SER* 2.4 22.6 + - - +
111B VAL* 3.0 29.6 + - + +
204B GLN* 3.3 24.2 - - + +
205B ILE* 5.1 5.6 - - + +
208B MET* 4.3 33.0 - - + -
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Residues in contact with VAL 108 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104B PHE* 2.9 42.5 + - + +
105B SER* 3.8 7.2 - - - +
107B LEU* 1.3 80.4 - - + +
109B LEU* 1.3 61.8 + - + +
111B VAL* 3.1 11.8 + - + +
112B PHE* 2.9 46.2 + - + -
292G LEU* 5.2 12.3 - - + -
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Residues in contact with LEU 109 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105B SER* 2.9 23.9 + - - +
106B CYS* 3.9 4.3 - - - +
108B VAL* 1.3 79.1 - - + +
110B SER* 1.3 57.7 + - - +
112B PHE* 3.1 19.1 + - + +
113B SER* 2.9 25.6 + - - -
122B SER* 4.3 15.8 - - - +
125B ALA* 4.2 30.7 - - + +
126B LEU* 4.5 12.6 - - + +
129B LEU* 4.1 25.6 - - + -
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Residues in contact with SER 110 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106B CYS 2.9 9.1 + - - -
107B LEU* 2.4 23.6 + - - +
109B LEU* 1.3 74.5 - - - +
111B VAL* 1.3 60.6 + - - +
113B SER* 2.6 29.7 + - - -
114B THR* 3.7 3.5 + - - -
126B LEU* 4.1 8.4 - - - +
200B LEU* 3.9 15.3 - - - -
201B ARG* 5.3 6.6 - - - +
204B GLN* 2.4 38.8 + - - -
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Residues in contact with VAL 111 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264A TYR* 4.2 15.3 - - + -
265A ALA* 4.2 24.0 - - + +
268A LEU* 4.0 29.2 - - + -
107B LEU* 3.0 30.2 + - + +
108B VAL* 3.1 12.3 + - + +
110B SER* 1.3 77.1 - - - +
112B PHE* 1.3 67.6 + - + +
114B THR* 3.1 26.8 - - - +
115B ILE* 4.1 3.8 + - - +
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Residues in contact with PHE 112 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108B VAL* 2.9 36.9 + - + +
109B LEU* 3.1 19.5 + - + +
111B VAL* 1.3 79.9 - - + +
113B SER* 1.3 62.3 + - - +
115B ILE* 3.4 31.3 + - + +
118B TYR* 4.0 40.0 - + + +
122B SER* 3.9 14.1 - - - -
288G TRP* 3.9 40.2 - + + -
292G LEU* 5.0 17.0 - - + -
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Residues in contact with SER 113 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109B LEU 2.9 10.4 + - - -
110B SER* 2.6 24.1 + - - -
111B VAL 3.1 0.8 - - - -
112B PHE* 1.3 78.4 - - - +
114B THR* 1.3 63.4 + - - +
115B ILE 3.2 10.2 - - - +
119B GLU* 3.5 22.0 - - - +
122B SER* 3.2 21.3 - - - -
123B GLU* 5.3 1.3 - - - -
126B LEU* 4.3 12.6 - - - +
197B LEU* 5.5 6.6 - - - +
200B LEU* 6.0 0.7 - - - +
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Residues in contact with THR 114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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251A TYR* 5.2 5.0 + - - -
263A THR* 4.2 15.1 - - - +
264A TYR* 4.1 34.1 + - + +
265A ALA 4.5 3.1 - - - +
110B SER 3.7 2.4 + - - +
111B VAL* 3.1 19.7 + - - +
113B SER* 1.3 79.5 + - - +
115B ILE* 1.3 66.9 + - + +
116B LYS* 3.5 3.8 + - - +
119B GLU* 5.0 2.5 - - - +
201B ARG* 5.5 5.6 + - - -
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Residues in contact with ILE 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
263A THR* 4.2 16.2 - - + +
265A ALA* 4.0 29.2 - - + -
111B VAL 4.6 2.9 - - - +
112B PHE* 3.4 25.4 + - + +
113B SER 3.2 13.3 - - - +
114B THR* 1.3 77.0 - - - +
116B LYS* 1.3 67.4 + - - +
117B GLU* 3.8 13.7 - - + +
118B TYR* 3.5 38.6 - - + +
119B GLU* 3.4 12.5 + - - +
288G TRP* 6.4 0.4 - - + -
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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
------------------------------------------------------------
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