Contacts of the helix formed by residues 91 - 115 (chain G) 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 G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90G GLY* 1.3 69.2 - - - +
92G ALA* 1.3 59.0 + - - +
93G PHE 3.1 2.7 - - - -
94G ILE* 2.9 53.4 + - + +
95G TYR* 3.9 1.4 + - - +
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Residues in contact with ALA 92 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G VAL* 3.7 37.2 - - + +
88G PRO* 3.5 28.9 - - + -
89G ARG* 4.8 2.5 - - + +
90G GLY 3.0 3.2 + - - +
91G TRP* 1.3 77.8 - - - +
93G PHE* 1.3 59.9 + - - +
94G ILE 3.0 1.5 + - - -
95G TYR* 3.1 13.8 + - - +
96G HIS* 3.0 21.5 + - + -
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Residues in contact with PHE 93 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230D LYS* 4.9 23.1 - - - -
88G PRO* 3.5 35.7 - - + -
89G ARG 4.3 12.1 - - - -
90G GLY* 3.3 19.0 + - - +
91G TRP 3.1 0.6 - - - -
92G ALA* 1.3 76.0 - - - +
94G ILE* 1.3 59.7 + - + +
96G HIS* 3.8 11.5 - + + +
97G ALA* 2.8 29.8 + - - +
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Residues in contact with ILE 94 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91G TRP* 2.9 47.0 + - + +
93G PHE* 1.3 79.9 - - + +
95G TYR* 1.3 59.4 + - - +
97G ALA* 3.2 7.6 + - + +
98G TYR* 2.9 53.7 + - + +
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Residues in contact with TYR 95 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G VAL* 4.2 19.5 - - + -
85G LEU* 3.6 30.7 - - + +
91G TRP 3.9 1.0 + - - -
92G ALA* 3.1 9.0 + - - +
94G ILE* 1.3 78.5 - - - +
96G HIS* 1.3 105.0 + + - +
98G TYR* 3.1 17.6 + - + +
99G VAL* 3.1 27.1 + - + +
136G VAL* 5.7 6.2 - - + +
140G GLU* 3.7 22.3 + - - +
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Residues in contact with HIS 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G VAL 3.2 20.9 + - - -
85G LEU* 3.8 18.6 + - + -
88G PRO* 4.6 14.1 - - + +
92G ALA* 3.0 32.7 + - + +
93G PHE* 4.0 13.0 - + + +
95G TYR* 1.3 97.1 - + - +
97G ALA* 1.3 58.0 + - - +
99G VAL* 3.1 11.9 - - - +
100G PHE* 2.9 29.7 + - - +
211G MET* 3.5 24.6 - - + +
213G ARG* 5.5 9.9 - - - -
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Residues in contact with ALA 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93G PHE 2.8 20.5 + - - +
94G ILE* 3.4 13.5 - - + +
95G TYR 3.1 0.4 - - - -
96G HIS* 1.3 77.5 - - - +
98G TYR* 1.3 64.8 + - + +
100G PHE* 3.2 6.4 + - - +
101G LEU* 2.8 42.7 + - + +
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Residues in contact with TYR 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94G ILE* 2.9 35.0 + - + +
95G TYR* 3.1 10.7 + - + +
97G ALA* 1.3 83.5 - - + +
99G VAL* 1.3 57.3 + - - +
101G LEU* 3.4 14.9 + - + +
102G LEU* 3.0 26.9 + - - +
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Residues in contact with VAL 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G TYR* 3.1 25.0 + - + +
96G HIS* 3.1 30.1 - - + +
98G TYR* 1.3 73.5 - - - +
100G PHE* 1.3 64.6 + - - +
102G LEU* 3.6 10.4 - - + +
103G VAL* 3.0 25.4 + - + +
136G VAL* 4.3 17.0 - - + -
137G PHE* 3.6 30.3 - - + -
140G GLU* 5.0 4.5 - - - +
210G ARG* 6.3 0.4 - - - +
211G MET* 4.3 13.7 - - + -
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Residues in contact with PHE 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96G HIS 2.9 20.2 + - - +
97G ALA* 3.2 8.7 + - - +
99G VAL* 1.3 78.0 - - - +
101G LEU* 1.3 70.8 + - + +
103G VAL* 3.2 10.0 - - + +
104G PHE* 2.9 50.2 + + + +
208G MET* 3.5 32.1 - - + -
211G MET* 3.9 28.9 - - + -
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Residues in contact with LEU 101 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97G ALA* 2.8 39.1 + - + +
98G TYR* 3.9 15.5 - - + +
100G PHE* 1.3 85.6 - - + +
102G LEU* 1.3 57.4 + - - +
104G PHE* 3.8 6.1 - - - +
105G SER* 2.9 33.8 + - - +
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Residues in contact with LEU 102 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98G TYR 3.0 18.2 + - - +
99G VAL* 3.6 10.3 - - + +
100G PHE 3.2 0.2 - - - -
101G LEU* 1.3 77.1 - - - +
103G VAL* 1.3 61.6 + - - +
105G SER* 3.3 4.8 + - - -
106G CYS* 3.0 21.4 + - - +
129G LEU* 4.0 22.5 - - + +
132G VAL* 4.8 12.6 - - + -
133G THR* 3.7 38.1 - - - +
136G VAL* 4.4 22.9 - - + -
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Residues in contact with VAL 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G VAL* 3.0 16.9 + - + +
100G PHE* 3.2 17.9 - - + +
102G LEU* 1.3 77.1 - - - +
104G PHE* 1.3 61.4 + - - +
106G CYS* 3.3 10.6 + - + +
107G LEU* 3.0 26.4 + - + +
133G THR* 4.8 4.7 - - + +
137G PHE* 4.2 20.6 - - + -
204G GLN* 5.2 2.6 - - + +
207G ARG* 3.8 42.6 - - + +
208G MET* 4.4 18.6 - - - -
211G MET* 6.1 4.7 - - + -
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Residues in contact with PHE 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
240D PHE* 3.8 37.7 - + - -
100G PHE* 2.9 35.2 + + + +
101G LEU* 3.8 7.2 - - + +
103G VAL* 1.3 77.0 - - + +
105G SER* 1.3 60.9 + - - +
107G LEU* 3.1 14.9 + - + +
108G VAL* 2.9 44.2 + - + +
208G MET* 3.8 25.8 - - + -
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Residues in contact with SER 105 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101G LEU* 2.9 19.0 + - - +
102G LEU* 3.8 5.4 - - - -
104G PHE* 1.3 73.4 - - - +
106G CYS* 1.3 60.7 + - - +
108G VAL* 3.8 8.0 - - - +
109G LEU* 2.9 37.8 + - - +
129G LEU* 4.8 12.3 - - - -
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Residues in contact with CYS 106 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102G LEU 3.0 13.5 + - - +
103G VAL* 3.4 16.4 - - - +
104G PHE 3.2 0.2 - - - -
105G SER* 1.3 77.1 - - - +
107G LEU* 1.3 58.2 + - - +
109G LEU* 3.4 5.0 + - - +
110G SER* 2.9 26.2 + - - -
126G LEU* 4.3 11.5 - - - +
129G LEU* 3.8 19.4 - - + +
130G GLU* 5.3 7.0 - - - -
133G THR* 4.9 15.3 - - + -
204G GLN* 2.9 39.0 - - - -
207G ARG* 5.1 6.5 - - - -
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Residues in contact with LEU 107 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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240D PHE* 4.7 8.7 - - + -
244D ILE* 4.6 22.4 - - + -
268D LEU* 5.7 4.0 - - + -
103G VAL* 3.0 13.1 + - + +
104G PHE* 3.1 16.8 + - + +
106G CYS* 1.3 77.6 - - - +
108G VAL* 1.3 65.7 + - + +
110G SER* 2.4 21.1 + - - -
111G VAL* 3.0 29.6 + - + +
204G GLN* 3.3 23.8 - - + +
205G ILE* 5.1 5.8 - - + +
208G MET* 4.3 33.2 - - + -
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Residues in contact with VAL 108 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292B LEU* 5.2 11.4 - - + -
104G PHE* 2.9 42.1 + - + +
105G SER* 3.8 7.9 - - - +
107G LEU* 1.3 79.5 - - + +
109G LEU* 1.3 63.2 + - + +
111G VAL* 3.1 10.5 + - + +
112G PHE* 2.9 46.9 + - + -
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Residues in contact with LEU 109 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105G SER* 2.9 24.9 + - - +
106G CYS* 3.9 4.5 - - - +
108G VAL* 1.3 80.0 - - + +
110G SER* 1.3 57.5 + - - +
112G PHE* 3.1 16.5 + - + +
113G SER* 2.9 26.2 + - - -
122G SER* 4.3 15.7 - - - +
125G ALA* 4.2 30.5 - - + +
126G LEU* 4.5 12.5 - - + +
129G LEU* 4.1 26.0 - - + -
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Residues in contact with SER 110 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106G CYS 2.9 8.9 + - - -
107G LEU* 2.4 24.3 + - - +
109G LEU* 1.3 74.2 - - - +
111G VAL* 1.3 58.8 + - - +
113G SER* 2.6 28.5 + - - -
114G THR* 3.7 3.3 + - - -
126G LEU* 4.1 8.1 - - - +
200G LEU* 3.9 14.8 - - - -
201G ARG* 5.3 7.0 - - - +
204G GLN* 2.4 39.9 + - - -
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Residues in contact with VAL 111 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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264D TYR* 4.2 15.3 - - + -
265D ALA* 4.2 23.5 - - + +
268D LEU* 4.0 29.4 - - + -
107G LEU* 3.0 30.2 + - + +
108G VAL* 3.1 12.8 + - + +
110G SER* 1.3 77.7 - - - +
112G PHE* 1.3 67.4 + - + +
114G THR* 3.1 26.5 - - - +
115G ILE* 4.1 3.3 + - - +
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Residues in contact with PHE 112 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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288B TRP* 3.9 40.2 - + + -
292B LEU* 5.0 17.0 - - + -
108G VAL* 2.9 36.6 + - + +
109G LEU* 3.1 19.7 + - + +
111G VAL* 1.3 78.6 - - + +
113G SER* 1.3 61.6 + - - +
114G THR 3.3 0.2 - - - -
115G ILE* 3.4 31.8 + - + +
118G TYR* 4.0 41.6 - + + +
122G SER* 3.9 14.1 - - - -
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Residues in contact with SER 113 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109G LEU 2.9 10.4 + - - -
110G SER* 2.6 23.6 + - - -
111G VAL 3.1 1.2 - - - -
112G PHE* 1.3 77.7 - - - +
114G THR* 1.3 64.0 + - - +
115G ILE 3.2 10.0 - - - +
119G GLU* 3.5 21.2 - - - +
122G SER* 3.2 21.3 - - - -
123G GLU* 5.3 1.1 - - - -
126G LEU* 4.3 13.2 - - - +
197G LEU* 5.5 6.7 - - - +
200G LEU* 6.0 0.9 - - - +
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Residues in contact with THR 114 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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251D TYR* 5.2 4.7 + - - -
263D THR* 4.2 15.5 - - - +
264D TYR* 4.1 34.7 + - + +
265D ALA 4.5 2.9 - - - +
110G SER 4.8 1.8 - - - -
111G VAL* 3.1 19.4 + - - +
113G SER* 1.3 80.0 + - - +
115G ILE* 1.3 66.5 + - + +
116G LYS* 3.5 3.8 + - - +
119G GLU* 5.0 2.3 - - - +
201G ARG* 5.5 5.4 + - - -
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Residues in contact with ILE 115 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288B TRP* 6.4 0.2 - - + -
263D THR* 4.2 17.0 - - + +
265D ALA* 4.0 28.9 - - + -
111G VAL 4.6 3.4 - - - +
112G PHE* 3.4 25.2 + - + +
113G SER 3.2 13.7 - - - +
114G THR* 1.3 76.3 - - + +
116G LYS* 1.3 67.6 + - - +
117G GLU* 3.8 14.4 - - + +
118G TYR* 3.5 39.0 - - + +
119G GLU* 3.4 12.6 + - - +
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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) + - + + + + + -
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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