Contacts of the helix formed by residues 77 - 105 (chain T) in PDB entry 3A68
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 LEU 77 (chain T).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70T PHE* 3.5 40.1 + - + +
75T VAL* 3.3 1.5 - - + +
76T ALA* 1.3 78.8 - - - +
78T ARG* 1.3 59.2 + - - +
79T GLY 3.3 2.7 - - - -
80T LEU* 3.3 4.7 + - + +
81T ALA* 3.0 27.4 + - - +
128T ASP* 3.9 10.3 - - - +
129T ALA* 4.2 13.0 - - + -
197T VAL* 4.2 7.0 - - + -
198T TRP* 4.5 6.5 - - + -
201T ASP* 3.2 31.6 - - + +
190U ARG* 3.6 52.0 - - - +
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Residues in contact with ARG 78 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70T PHE 5.2 0.4 - - - +
76T ALA* 3.6 9.6 + - + -
77T LEU* 1.3 71.8 - - - +
79T GLY* 1.3 58.5 + - - +
81T ALA* 3.7 7.0 - - - +
82T LYS* 3.0 29.5 + - - +
201T ASP* 3.1 5.0 + - - +
202T GLN* 3.0 23.7 + - - +
205T LEU* 3.9 29.1 - - + +
183U GLU* 4.6 24.0 - - - +
184U TYR* 6.0 0.2 - - - -
187U GLN* 2.9 37.6 + - - +
203U MET* 3.8 16.0 - - - +
207U GLU* 3.2 24.7 + - - +
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Residues in contact with GLY 79 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78T ARG* 1.3 78.6 - - - +
80T LEU* 1.3 56.6 + - - +
82T LYS* 3.4 2.9 + - - +
83T PHE* 2.9 28.2 + - - +
201T ASP* 2.9 30.0 + - - -
204T LEU* 3.8 11.1 - - - +
205T LEU* 3.7 21.1 - - - +
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Residues in contact with LEU 80 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70T PHE* 3.6 38.4 - - + -
77T LEU* 3.3 8.0 + - + +
79T GLY* 1.3 70.0 - - - +
81T ALA* 1.3 67.4 + - - +
83T PHE* 3.2 1.8 + - - +
84T PHE* 2.9 45.2 + - + -
129T ALA* 3.7 32.3 - - + +
133T MET* 4.2 11.0 - - + -
188T LEU* 5.6 0.2 - - + -
200T PHE* 4.2 17.7 - - + -
201T ASP* 2.8 34.2 + - + +
204T LEU* 3.8 20.2 - - + -
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Residues in contact with ALA 81 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67T PHE* 3.2 30.3 - - + +
70T PHE* 3.9 28.6 - - - +
71T ASP* 3.9 11.0 - - + +
77T LEU 3.0 17.0 + - - +
78T ARG* 3.7 9.0 - - - +
80T LEU* 1.3 76.4 - - - +
82T LYS* 1.3 58.0 + - - +
84T PHE* 3.4 0.5 + - - -
85T LYS* 2.9 24.8 + - - +
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Residues in contact with LYS 82 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78T ARG 3.0 18.1 + - - +
79T GLY* 3.6 4.7 - - - +
81T ALA* 1.3 77.6 - - - +
83T PHE* 1.3 64.0 + - - +
85T LYS* 3.3 8.4 + - + +
86T GLU* 3.0 59.5 + - + +
204T LEU 5.0 4.4 + - - +
205T LEU* 4.0 36.3 + - + +
207T GLU* 5.2 9.1 + - - +
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Residues in contact with PHE 83 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63T TYR* 5.6 1.8 - + - -
79T GLY 2.9 17.8 + - - +
80T LEU 3.6 3.1 - - - +
82T LYS* 1.3 78.4 - - - +
84T PHE* 1.3 86.0 + + - +
86T GLU* 3.4 8.1 + - + +
87T SER* 2.9 50.2 + - - -
133T MET* 3.7 24.9 - - + -
136T ALA* 5.4 0.7 - - + -
180T ARG* 3.4 44.6 - - - -
181T ILE* 4.2 21.5 - - + -
184T TYR* 3.8 15.0 - + - -
204T LEU* 3.9 17.3 - - + -
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Residues in contact with PHE 84 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63T TYR* 3.6 37.6 - + - +
66T MET* 3.4 37.0 - - + -
67T PHE* 3.6 9.9 - - - +
70T PHE* 3.9 28.7 - + - -
80T LEU* 2.9 40.0 + - + +
83T PHE* 1.3 96.0 - + - +
85T LYS* 1.3 60.1 + - - +
87T SER* 3.7 3.1 - - - -
88T SER* 2.8 31.4 + - - -
132T ALA* 4.2 4.7 - - + -
133T MET* 4.1 19.7 - - + -
136T ALA* 4.2 11.4 - - + -
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Residues in contact with LYS 85 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92P ARG* 4.6 2.1 + - - -
96P GLU* 3.3 35.1 + - - +
100P GLU* 2.5 30.8 + - - -
216P CA 4.5 2.9 - - - -
64T HIS* 5.0 0.7 - - - +
67T PHE* 3.6 31.0 - - + +
81T ALA 2.9 19.4 + - - +
82T LYS* 3.3 8.5 + - + +
84T PHE* 1.3 77.5 - - - +
86T GLU* 1.3 64.4 + - + +
88T SER* 3.4 6.4 + - - -
89T GLU* 3.2 20.7 + - - +
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Residues in contact with GLU 86 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82T LYS* 3.0 59.8 + - + +
83T PHE* 3.9 7.2 - - + +
85T LYS* 1.3 76.5 - - + +
87T SER* 1.3 59.9 + - - +
89T GLU* 3.2 10.1 + - - +
90T GLU* 3.0 28.3 + - - +
180T ARG* 5.4 6.1 + - - -
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Residues in contact with SER 87 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63T TYR* 3.7 28.9 - - - -
83T PHE* 2.9 47.9 + - - -
84T PHE* 3.7 5.6 - - - -
86T GLU* 1.3 74.7 - - - +
88T SER* 1.3 64.6 + - - +
90T GLU* 3.3 14.7 + - - +
91T GLU* 2.9 28.6 + - - +
180T ARG* 5.2 1.4 + - - -
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Residues in contact with SER 88 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92P ARG* 2.8 22.9 + - - -
60T SER* 2.8 46.7 + - - +
63T TYR* 3.8 8.4 - - - +
64T HIS* 3.5 24.8 + - - -
84T PHE 2.8 17.1 + - - -
85T LYS 3.5 5.6 - - - -
87T SER* 1.3 77.9 - - - +
89T GLU* 1.3 62.3 + - - +
91T GLU 3.3 0.3 + - - -
92T ARG* 3.1 10.9 + - - +
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Residues in contact with GLU 89 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89P GLU* 5.1 6.8 - - - +
92P ARG* 3.5 23.9 + - - +
93P GLU* 5.3 5.1 - - - +
85T LYS 3.2 9.3 + - - +
86T GLU* 3.2 13.8 + - - +
88T SER* 1.3 79.0 - - - +
90T GLU* 1.3 63.5 + - - +
92T ARG* 3.3 6.6 + - + +
93T GLU* 3.1 31.3 + - + +
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Residues in contact with GLU 90 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86T GLU 3.0 15.7 + - - +
87T SER* 3.6 14.4 + - - +
89T GLU* 1.3 76.4 - - - +
91T GLU* 1.3 61.2 + - - +
93T GLU* 3.1 11.8 + - + +
94T HIS* 2.9 51.4 + - + +
180T ARG* 5.2 8.0 + - - -
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Residues in contact with GLU 91 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56T GLU* 3.2 16.1 - - - +
59T VAL* 3.4 24.5 - - + +
60T SER* 3.6 23.8 - - - +
63T TYR* 3.6 20.9 - - + -
87T SER* 2.9 21.6 + - - +
88T SER 3.7 0.2 - - - +
89T GLU 3.3 0.2 - - - -
90T GLU* 1.3 78.7 - - - +
92T ARG* 1.3 64.1 + - - +
94T HIS* 3.1 17.0 + - - +
95T ALA* 3.0 21.0 + - - +
140T GLU* 3.7 13.7 - - - +
214T CA 2.6 30.2 - - - -
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Residues in contact with ARG 92 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60P SER* 4.7 2.4 + - - -
64P HIS* 3.5 18.4 + - + -
85P LYS 4.6 1.4 + - - -
88P SER* 2.9 29.7 + - - -
89P GLU* 3.6 35.3 + - - +
92P ARG* 3.4 34.8 - - - +
57T TYR* 3.7 28.3 + - + +
60T SER* 3.7 12.5 - - - +
88T SER 3.1 13.7 + - - +
89T GLU* 3.5 11.2 - - - +
90T GLU 3.3 0.2 - - - -
91T GLU* 1.3 75.7 - - - +
93T GLU* 1.3 76.9 + - - +
95T ALA* 3.2 7.6 + - - +
96T GLU* 2.9 36.6 + - - +
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Residues in contact with GLU 93 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89P GLU* 5.5 2.3 - - - +
89T GLU* 3.1 23.2 + - + +
90T GLU* 3.1 12.6 + - + +
92T ARG* 1.3 91.9 + - - +
94T HIS* 1.3 61.7 + - + +
96T GLU* 3.5 13.7 - - - +
97T LYS* 2.9 30.7 + - - +
216T CA 3.0 27.5 - - - -
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Residues in contact with HIS 94 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56T GLU* 3.6 14.6 - - - +
90T GLU* 2.9 48.7 + - + +
91T GLU* 3.1 17.6 + - - +
93T GLU* 1.3 79.5 - - + +
95T ALA* 1.3 62.7 + - - +
97T LYS* 4.6 3.6 - - + -
98T LEU* 3.3 7.6 + - - +
169T GLU 6.0 1.6 - - - -
170T TYR* 2.6 44.7 + + + -
173T GLU* 5.5 13.6 - - + +
214T CA 2.8 23.1 - - - -
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Residues in contact with ALA 95 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53T ILE* 3.8 16.5 - - + +
56T GLU* 3.8 12.0 - - + +
57T TYR* 3.7 34.1 - - + +
91T GLU 3.0 12.2 + - - +
92T ARG* 3.5 9.4 - - - +
94T HIS* 1.3 75.8 - - - +
96T GLU* 1.3 59.8 + - - +
98T LEU* 3.1 7.1 + - - +
99T MET* 3.0 31.8 + - - +
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Residues in contact with GLU 96 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64P HIS* 2.8 32.4 + - + +
67P PHE* 4.4 8.5 - - + -
85P LYS* 3.2 37.0 + - - +
92T ARG* 2.9 24.1 + - - +
93T GLU* 3.3 17.6 + - - +
95T ALA* 1.3 78.5 - - - +
97T LYS* 1.3 57.1 + - - +
99T MET* 3.2 10.6 + - - +
100T GLU* 2.9 34.1 + - - +
216T CA 3.0 24.7 - - - -
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Residues in contact with LYS 97 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93T GLU 2.9 16.5 + - - +
94T HIS* 4.4 4.5 - - + -
96T GLU* 1.3 75.8 - - - +
98T LEU* 1.3 57.0 + - - +
100T GLU* 3.4 15.2 + - - +
101T TYR* 2.9 26.5 + - - +
165T PHE* 4.0 12.3 - - + -
169T GLU* 2.5 54.1 + - - +
170T TYR* 3.4 20.2 - - + +
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Residues in contact with LEU 98 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49T VAL* 3.9 21.7 - - + +
52T GLN* 3.5 35.0 - - + -
53T ILE* 3.6 13.5 - - + +
56T GLU* 4.0 10.5 - - + -
94T HIS 3.3 6.6 + - - +
95T ALA 3.1 7.9 + - - +
97T LYS* 1.3 77.4 - - - +
99T MET* 1.3 60.0 + - - +
101T TYR* 3.6 4.4 - - + +
102T GLN* 2.9 29.3 + - - +
150T LEU* 4.6 16.8 - - + -
162T LEU* 5.8 0.4 - - + -
165T PHE* 3.9 22.9 - - + -
166T VAL* 5.6 0.7 - - + -
170T TYR* 3.2 33.4 - - + +
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Residues in contact with MET 99 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64P HIS* 3.7 53.6 - - + +
67P PHE* 4.1 10.3 - - + -
68P ALA* 3.9 14.6 - - + -
53T ILE* 3.8 27.1 - - + -
57T TYR* 4.5 3.6 - - - -
95T ALA 3.0 22.7 + - - +
96T GLU* 3.2 15.7 + - - +
98T LEU* 1.3 77.5 - - - +
100T GLU* 1.3 62.9 + - - +
102T GLN* 3.3 4.7 + - - +
103T ASN* 3.2 22.2 + - - -
109T VAL* 3.5 16.1 - - + +
111T LEU* 4.3 20.9 - - + -
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Residues in contact with GLU 100 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179L LYS* 5.3 0.3 + - - -
67P PHE* 3.9 21.4 - - + -
71P ASP* 4.1 12.4 - - - +
85P LYS* 2.7 33.5 + - - -
96T GLU* 2.9 23.6 + - - +
97T LYS* 3.7 15.1 + - - +
99T MET* 1.3 77.0 - - - +
101T TYR* 1.3 56.3 + - - +
103T ASN* 3.2 4.5 + - - +
104T LYS* 2.9 42.6 + - - +
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Residues in contact with TYR 101 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175L VAL* 5.2 4.3 - - + -
41T TYR* 4.4 8.3 - + - -
49T VAL* 4.7 5.8 - - + -
97T LYS 2.9 18.6 + - - +
98T LEU* 3.3 6.3 + - + +
100T GLU* 1.3 73.1 - - - +
102T GLN* 1.3 69.0 + - - +
104T LYS* 3.0 19.2 + - + +
105T ARG* 2.9 57.3 + - + +
161T GLN* 2.6 30.9 + - - -
162T LEU* 3.2 37.8 - - + -
165T PHE* 3.7 46.9 - + + -
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Residues in contact with GLN 102 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41T TYR* 2.7 45.1 + - - -
46T GLU* 3.1 23.3 + - - +
49T VAL* 3.6 12.3 - - + +
50T ASN* 3.0 29.3 + - - +
53T ILE* 4.7 0.4 - - + -
98T LEU 2.9 13.8 + - - +
99T MET* 3.4 10.3 - - - +
101T TYR* 1.3 77.4 - - - +
103T ASN* 1.3 57.8 + - - +
105T ARG* 3.2 1.9 + - - +
106T GLY 3.1 6.9 + - - -
107T GLY* 2.9 47.6 + - - +
108T LYS 3.7 0.8 + - - -
109T VAL* 3.7 21.5 - - + +
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Residues in contact with ASN 103 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179L LYS* 3.8 14.7 - - - +
67P PHE* 5.5 0.4 - - - -
68P ALA* 2.9 29.7 + - - +
71P ASP* 2.9 48.9 + - - +
72P ARG* 3.5 17.0 - - - +
73P ASP* 4.3 7.1 + - - +
99T MET 3.2 12.5 + - - +
100T GLU 3.7 4.0 - - - +
101T TYR 3.2 0.2 - - - -
102T GLN* 1.3 79.5 - - - +
104T LYS* 1.3 64.1 + - - +
106T GLY* 3.1 11.5 + - - -
107T GLY 3.5 15.0 - - - +
109T VAL* 4.2 9.4 + - - +
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Residues in contact with LYS 104 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175L VAL* 3.9 27.8 - - + +
176L GLU* 2.8 43.2 + - - +
178L ILE* 5.8 0.5 - - - +
179L LYS* 3.9 35.9 - - + +
37T ALA* 4.2 7.8 - - - +
100T GLU* 2.9 29.6 + - - +
101T TYR* 3.0 21.2 + - + +
103T ASN* 1.3 76.3 - - - +
105T ARG* 1.3 60.4 + - - +
106T GLY 3.6 0.2 + - - -
165T PHE* 6.2 2.0 - - - -
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Residues in contact with ARG 105 (chain T).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175L VAL* 3.8 29.2 - - + +
37T ALA 5.0 1.1 - - - -
38T ARG* 3.3 26.3 - - - +
39T GLN 3.4 16.5 + - - +
40T LYS* 3.1 17.6 + - - +
41T TYR* 3.5 39.4 - - + +
101T TYR* 2.9 58.1 + - + +
102T GLN 3.8 1.1 - - - +
103T ASN 3.2 0.2 - - - -
104T LYS* 1.3 77.1 - - - +
106T GLY* 1.3 61.9 + - - +
107T GLY 3.6 0.3 + - - -
159T ASP* 2.9 41.2 + - - -
161T GLN* 4.1 8.3 + - - +
162T LEU* 3.8 3.2 - - - +
----------------------------------------------------------
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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).
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