Contacts of the helix formed by residues 95 - 124 (chain G) in PDB entry 5JKL
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 SER 95 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40G TYR* 3.8 3.9 + - - -
41G PHE* 3.5 13.2 - - - -
93G TRP 2.8 9.4 + - - +
94G GLU* 1.3 79.7 + - - +
96G GLY* 1.3 64.5 + - - +
97G LEU* 3.6 1.7 + - - +
98G ASN* 3.0 24.8 + - - +
99G ALA 3.0 17.8 + - - -
161G PRO* 3.7 24.2 - - - +
167G GLU* 3.6 14.4 - - - -
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Residues in contact with GLY 96 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41G PHE* 3.7 13.8 - - - -
51G PHE* 3.5 26.7 - - - -
95G SER* 1.3 71.6 - - - +
97G LEU* 1.4 62.2 + - - +
99G ALA* 3.3 3.5 + - - +
100G MET* 3.0 27.9 + - - +
155G LEU* 4.1 2.0 - - - -
167G GLU* 2.8 23.4 + - - -
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Residues in contact with LEU 97 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G SER* 3.3 4.0 - - - +
96G GLY* 1.4 73.3 - - - +
98G ASN* 1.4 64.4 + - - +
100G MET* 3.2 2.1 + - - +
101G GLU* 2.9 44.7 + - - +
152G VAL* 3.9 34.3 - - + +
155G LEU* 3.9 17.6 - - + +
156G ARG* 4.1 15.0 - - + -
160G ALA* 3.6 18.6 - - + +
161G PRO* 3.6 28.9 - - + -
167G GLU* 2.9 16.2 + - - +
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Residues in contact with ASN 98 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90G GLU* 5.8 3.2 - - - +
93G TRP* 3.0 33.7 + - - +
94G GLU* 3.7 26.1 - - + +
95G SER* 3.0 17.1 + - - +
97G LEU* 1.4 77.9 - - - +
99G ALA* 1.3 57.2 + - - +
101G GLU* 3.2 16.4 + - - +
102G GLU* 2.8 52.9 + - - +
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Residues in contact with ALA 99 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G MET* 3.7 12.4 - - - +
41G PHE* 3.6 27.6 - - + -
55G PHE* 4.0 12.3 - - + -
93G TRP* 3.9 16.3 + - + -
95G SER 3.0 18.2 + - - +
96G GLY 3.8 2.0 - - - +
98G ASN* 1.3 77.3 - - - +
100G MET* 1.3 58.0 + - - +
102G GLU* 3.3 5.1 + - - -
103G ALA* 2.9 29.1 + - - +
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Residues in contact with MET 100 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G PHE* 3.8 21.3 - - + -
54G TYR* 3.9 24.7 - - + -
55G PHE* 3.8 12.8 - - + -
96G GLY 3.0 21.0 + - - +
97G LEU 3.6 4.3 - - - +
99G ALA* 1.3 75.6 - - - +
101G GLU* 1.3 58.3 + - - +
103G ALA* 3.3 4.5 + - - +
104G LEU* 2.9 28.8 + - - +
148G LEU* 3.7 27.6 - - + +
151G HIS* 3.9 25.6 - - + -
152G VAL* 3.8 19.2 - - + +
155G LEU* 3.9 15.7 - - + -
170G PHE* 4.4 2.2 - - + -
175G LEU* 4.0 11.2 - - + -
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Residues in contact with GLU 101 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97G LEU* 2.9 35.4 + - + +
98G ASN* 3.2 17.8 + - - +
100G MET* 1.3 77.5 - - - +
102G GLU* 1.3 58.4 + - + +
104G LEU* 3.4 8.1 + - + +
105G GLU* 3.1 26.9 + - - +
152G VAL* 3.9 21.3 - - + -
156G ARG* 2.9 34.6 + - - +
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Residues in contact with GLU 102 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G MET* 3.8 16.2 - - + -
89G ASP* 4.2 14.9 - - - +
90G GLU* 5.6 2.0 - - - +
93G TRP* 3.8 22.8 - - + -
98G ASN* 2.8 39.6 + - - +
99G ALA 3.7 3.8 - - - +
101G GLU* 1.3 74.6 - - - +
103G ALA* 1.3 59.2 + - - +
105G GLU* 3.3 19.9 + - - +
106G LEU* 2.8 29.8 + - - +
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Residues in contact with ALA 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G TYR* 3.9 25.6 - - + +
37G MET* 4.0 7.1 - - - +
55G PHE* 4.2 7.0 - - + -
99G ALA 2.9 16.6 + - - +
100G MET 3.6 4.7 - - - +
101G GLU 3.3 0.2 - - - -
102G GLU* 1.3 75.2 - - - +
104G LEU* 1.3 57.0 + - - +
106G LEU* 3.2 7.2 + - - +
107G GLU* 2.8 33.8 + - - +
148G LEU* 3.7 19.7 - - + -
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Residues in contact with LEU 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100G MET 2.9 13.6 + - - +
101G GLU* 3.5 13.5 - - + +
103G ALA* 1.3 76.5 - - - +
105G GLU* 1.3 62.4 + - - +
107G GLU* 3.2 2.4 + - - +
108G LYS* 3.0 40.1 + - + +
145G ILE* 3.8 41.1 - - + +
148G LEU* 3.8 13.4 - - + +
149G GLY* 4.3 13.5 - - - +
152G VAL* 4.6 19.1 - - + -
156G ARG* 6.1 1.3 - - - +
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Residues in contact with GLU 105 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A GLN* 4.3 17.8 + - - +
89G ASP* 5.6 0.9 - - - +
101G GLU 3.1 11.9 + - - +
102G GLU* 3.6 23.2 - - - +
104G LEU* 1.3 81.0 - - - +
106G LEU* 1.3 62.3 + - - +
108G LYS* 3.3 7.1 + - - +
109G ASN* 2.9 43.3 + - - +
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Residues in contact with LEU 106 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G LEU* 5.4 1.3 - - + -
29G TYR* 3.9 31.0 - - + +
30G ALA* 4.0 22.4 - - + -
33G VAL* 4.0 26.2 - - + -
34G TYR* 4.2 23.3 - - + +
102G GLU 2.8 13.3 + - - +
103G ALA* 3.4 8.1 - - - +
105G GLU* 1.3 77.5 - - - +
107G GLU* 1.3 65.1 + - - +
109G ASN* 3.1 12.9 + - + +
110G VAL* 3.0 36.9 + - + +
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Residues in contact with GLU 107 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G ALA* 5.2 0.2 - - - +
34G TYR* 2.6 43.8 + - + +
58G GLN* 5.6 0.5 - - - +
62G GLU* 3.2 16.2 - - - +
103G ALA 2.8 17.5 + - - +
104G LEU 3.2 2.0 + - - +
106G LEU* 1.3 80.6 - - - +
108G LYS* 1.3 58.1 + - - +
110G VAL* 4.5 6.0 - - - +
111G ASN* 2.9 25.3 + - - +
141G GLN* 2.7 44.5 + - - +
144G ALA* 4.3 14.2 - - + +
145G ILE* 3.8 21.9 - - + +
148G LEU* 3.6 13.5 - - + -
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Residues in contact with LYS 108 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104G LEU* 3.0 35.2 + - + +
105G GLU* 3.8 6.3 - - - +
107G GLU* 1.3 76.6 - - - +
109G ASN* 1.3 61.2 + - - +
111G ASN* 3.6 3.5 - - - +
112G GLN* 2.9 27.7 + - - +
145G ILE* 3.9 31.4 - - + -
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Residues in contact with ASN 109 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A GLN* 4.7 11.5 - - - +
26G LEU* 4.7 5.5 - - + +
105G GLU* 2.9 41.1 + - - +
106G LEU* 3.1 14.9 + - + +
108G LYS* 1.3 80.2 - - - +
110G VAL* 1.3 60.9 + - + +
112G GLN* 3.2 8.6 + - - +
113G SER* 3.1 20.8 + - - -
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Residues in contact with VAL 110 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G GLN* 3.8 8.1 - - - +
26G LEU* 4.0 25.4 - - + +
27G GLU* 3.6 27.4 - - - +
30G ALA* 4.6 11.4 - - + -
62G GLU* 6.3 0.2 - - - -
106G LEU* 3.0 37.2 + - + +
107G GLU* 3.8 8.7 - - - +
109G ASN* 1.3 70.9 - - + +
111G ASN* 1.3 65.5 + - - +
113G SER* 3.1 4.3 + - - -
114G LEU* 3.0 23.9 + - + +
141G GLN* 3.8 20.6 - - - +
201G FE 4.5 2.5 - - - -
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Residues in contact with ASN 111 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107G GLU 2.9 19.8 + - - +
108G LYS* 3.6 5.6 - - - +
109G ASN 3.2 0.2 - - - -
110G VAL* 1.3 73.9 - - - +
112G GLN* 1.3 66.2 + - - +
114G LEU* 3.1 3.2 + - - +
115G LEU* 2.8 48.4 + - - +
138G LEU* 4.3 13.3 - - - +
141G GLN* 3.5 28.7 - - + +
142G VAL* 4.9 10.4 - - - +
145G ILE* 3.9 19.7 - - + +
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Residues in contact with GLN 112 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108G LYS 2.9 15.0 + - - +
109G ASN* 3.2 11.0 + - - +
111G ASN* 1.3 75.8 - - - +
113G SER* 1.3 58.1 + - - +
115G LEU* 3.3 16.1 + - - +
116G GLU* 2.9 65.7 + - - +
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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
----------------------------------------------------------
22G ARG* 5.9 0.7 - - - +
23G GLN* 2.7 22.3 + - - -
26G LEU* 3.5 28.8 - - - +
109G ASN 3.1 9.6 + - - -
110G VAL 3.5 3.4 - - - -
111G ASN 3.1 0.2 - - - -
112G GLN* 1.3 78.0 - - - +
114G LEU* 1.3 56.3 + - - +
116G GLU* 3.3 12.2 + - - +
117G LEU* 2.9 28.2 + - - +
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Residues in contact with LEU 114 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G GLN* 3.5 30.3 - - + +
27G GLU* 4.6 0.2 - - - +
69G LEU* 5.7 1.1 - - + -
110G VAL* 3.0 21.6 + - + +
111G ASN* 3.1 6.0 + - - +
113G SER* 1.3 75.5 - - - +
115G LEU* 1.3 59.2 + - - +
117G LEU* 3.2 15.6 + - + +
118G HIS* 2.8 29.3 + - - +
133G ILE* 4.2 8.6 - - + +
137G TYR* 3.8 41.1 - - + +
138G LEU* 3.9 15.0 - - + -
141G GLN* 3.4 36.8 - - + +
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Residues in contact with LEU 115 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111G ASN* 2.8 42.1 + - - +
112G GLN* 3.7 19.5 - - - +
114G LEU* 1.3 78.3 - - - +
116G GLU* 1.3 56.0 + - - +
118G HIS* 3.5 7.4 + - + +
119G LYS* 3.0 27.2 + - - +
138G LEU* 4.2 26.5 - - + -
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Residues in contact with GLU 116 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112G GLN* 2.9 52.1 + - - +
113G SER* 3.7 9.5 - - - +
115G LEU* 1.3 75.2 - - - +
117G LEU* 1.3 59.6 + - - +
119G LYS* 3.3 14.5 + - + +
120G LEU* 3.0 28.6 + - - +
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Residues in contact with LEU 117 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G SER 4.7 1.3 - - - +
19G ALA* 3.3 41.7 - - + +
20G ILE* 4.0 25.1 - - + +
23G GLN* 4.4 24.9 - - + +
69G LEU* 5.3 2.0 - - + -
113G SER 2.9 14.5 + - - +
114G LEU* 3.4 15.3 - - + +
116G GLU* 1.3 77.8 - - - +
118G HIS* 1.3 57.4 + - - +
120G LEU* 3.2 9.3 + - + +
121G ALA* 2.9 28.2 + - - +
129G LEU* 5.4 5.6 - - + +
133G ILE* 3.6 24.9 - - + -
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Residues in contact with HIS 118 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114G LEU 2.8 19.3 + - - +
115G LEU* 3.8 10.3 - - + +
116G GLU 3.3 0.2 - - - -
117G LEU* 1.3 72.9 - - - +
119G LYS* 1.4 60.1 + - - +
121G ALA* 3.2 3.1 + - - +
122G THR* 2.9 51.0 + - - -
130G CYS* 3.6 31.5 + - - +
133G ILE* 3.8 21.2 - - + +
134G GLU* 2.6 36.0 + - + +
138G LEU* 4.4 9.6 - - + -
----------------------------------------------------------
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Residues in contact with LYS 119 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115G LEU 3.0 18.1 + - - +
116G GLU* 3.7 12.3 - - + +
117G LEU 3.3 0.4 - - - -
118G HIS* 1.4 77.5 + - - +
120G LEU* 1.3 60.0 + - - +
122G THR* 3.3 8.5 + - + -
123G ASP* 3.0 53.4 + - - +
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Residues in contact with LEU 120 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G ASP* 3.6 39.7 - - + +
16G SER* 3.9 10.1 - - - +
19G ALA* 3.7 19.1 - - + -
22G ARG* 5.4 2.9 - - - +
116G GLU 3.0 14.2 + - - +
117G LEU* 3.5 9.9 - - + +
119G LYS* 1.3 76.4 - - - +
121G ALA* 1.3 60.0 + - - +
123G ASP* 3.1 9.8 + - + +
124G LYS* 2.9 58.0 + - + +
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Residues in contact with ALA 121 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G SER* 4.7 1.8 - - - -
117G LEU 2.9 17.0 + - - +
118G HIS* 3.6 7.2 - - - +
120G LEU* 1.3 76.4 - - - +
122G THR* 1.3 60.4 + - - +
124G LYS* 3.5 4.2 + - - +
125G ASN 3.2 3.8 + - - -
126G ASP* 2.9 32.8 + - - +
129G LEU* 3.8 36.3 - - + -
130G CYS* 3.8 18.2 - - - +
133G ILE* 4.6 0.2 - - + -
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Residues in contact with THR 122 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118G HIS* 2.9 43.7 + - - -
119G LYS* 3.5 9.8 - - + +
120G LEU 3.2 0.2 - - - -
121G ALA* 1.3 77.2 - - - +
123G ASP* 1.3 64.7 + - - +
125G ASN* 3.0 26.4 + - - +
130G CYS* 3.5 8.6 - - - -
----------------------------------------------------------
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Residues in contact with ASP 123 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119G LYS* 3.0 47.0 + - - +
120G LEU* 3.6 10.4 - - + +
122G THR* 1.3 81.8 - - - +
124G LYS* 1.3 68.0 + - + +
125G ASN* 3.3 11.8 + - - -
----------------------------------------------------------
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Residues in contact with LYS 124 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G ASN* 4.4 7.8 - - - +
13G HIS* 3.5 58.8 + - + +
15G ASP* 3.8 13.7 + - + -
16G SER* 4.2 8.5 - - - +
120G LEU* 2.9 36.6 + - + +
121G ALA* 4.1 3.4 - - - +
122G THR 3.2 0.2 - - - -
123G ASP* 1.3 83.2 - - - +
125G ASN* 1.3 73.1 + - - +
126G ASP* 3.3 6.9 + - + +
----------------------------------------------------------
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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