Contacts of the helix formed by residues 136 - 160 (chain A) in PDB entry 2KZ1
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 136 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ASP* 4.7 8.5 - - - -
133A LYS* 2.7 21.6 + - - -
134A LYS* 3.3 5.3 + - - +
135A TYR* 1.3 79.1 - - - +
137A PRO* 1.3 69.8 - - - +
138A CYS* 3.2 5.6 - - - -
139A ALA* 3.0 13.1 + - - +
140A TRP* 2.9 25.5 + - - +
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Residues in contact with PRO 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A LYS* 6.0 7.4 - - + -
24A ILE* 5.3 6.7 - - + -
75A ALA* 6.1 1.3 - - + -
76A TRP* 5.4 0.2 - - - -
135A TYR 3.8 2.6 - - - +
136A SER* 1.3 87.1 - - - +
138A CYS* 1.3 57.5 + - + +
140A TRP* 3.2 10.4 + - + +
141A GLU* 2.8 36.0 + - + +
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Residues in contact with CYS 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ILE* 4.6 6.2 - - + +
28A SER 4.8 1.3 - - - -
29A CYS* 2.0 55.1 - - - -
31A LYS* 5.4 2.5 - - - -
32A ASP* 3.7 29.2 - - - +
136A SER* 3.2 3.3 - - - -
137A PRO* 1.3 81.0 - - + +
139A ALA* 1.3 61.9 + - - +
141A GLU* 3.4 5.0 + - - +
142A VAL* 3.3 27.2 + - - +
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Residues in contact with ALA 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ASP* 4.0 16.7 + - + +
129A TYR* 5.9 0.4 - - + -
130A LEU* 4.5 10.5 - - + -
133A LYS* 3.6 39.7 - - + -
136A SER* 3.0 12.3 + - - +
138A CYS* 1.3 77.0 - - - +
140A TRP* 1.3 60.7 + - - +
142A VAL* 3.2 3.6 + - - +
143A VAL* 2.8 35.5 + - + +
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Residues in contact with TRP 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A LEU* 4.5 18.4 - - + -
67A PHE* 4.9 7.0 - + - -
69A THR* 4.9 0.4 - - - -
71A ASP 4.3 2.0 + - - -
72A SER* 3.4 38.1 - - - -
75A ALA* 3.6 24.7 - - + +
76A TRP* 3.4 35.2 - + + -
130A LEU* 3.7 18.4 - - + +
135A TYR* 3.3 62.8 + + - +
136A SER 2.9 11.6 + - - +
137A PRO* 3.2 11.2 + - + +
139A ALA* 1.3 77.6 - - - +
141A GLU* 1.3 53.0 + - - +
143A VAL* 3.6 26.6 - - + +
144A ARG* 2.7 38.0 + - - +
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Residues in contact with GLU 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A ARG* 3.0 13.5 + - - +
23A LYS* 2.7 36.0 + - + -
24A ILE* 2.8 31.3 + - + +
25A SER 5.6 0.2 - - - -
26A LEU* 4.2 10.0 - - + +
29A CYS* 4.7 5.8 - - + -
76A TRP* 4.0 10.5 - - + -
137A PRO 2.8 16.1 + - - +
138A CYS* 3.5 11.2 - - - +
140A TRP* 1.3 76.0 - - - +
142A VAL* 1.3 57.6 + - - +
144A ARG* 2.6 34.1 + - - +
145A ALA* 2.9 26.9 + - - +
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Residues in contact with VAL 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 4.3 10.1 - - + -
29A CYS* 4.1 20.6 - - + +
32A ASP 3.2 28.9 - - - +
33A ARG* 3.9 21.5 - - + -
34A HIS 4.8 1.3 - - - +
36A PHE* 4.8 14.6 - - + -
138A CYS 3.4 11.2 - - - +
139A ALA 3.2 4.8 + - - +
141A GLU* 1.3 73.6 - - - +
143A VAL* 1.3 61.3 + - + +
145A ALA* 3.0 9.2 + - + +
146A GLU* 2.9 28.4 + - + +
46B MET 5.7 0.4 - - - +
47B SER 4.6 13.5 - - - +
48B LYS* 5.9 0.4 - - + -
49B PRO* 5.2 3.4 - - + -
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Residues in contact with VAL 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A PHE* 4.4 17.3 - - + -
66A LEU* 4.8 2.7 - - + -
67A PHE* 5.9 0.4 - - + -
126A ILE* 3.5 33.4 - - + +
129A TYR* 5.6 1.1 - - + -
130A LEU* 3.7 20.0 - - + +
139A ALA* 2.8 21.9 + - + +
140A TRP* 3.6 29.6 - - + +
142A VAL* 1.3 75.6 - - + +
144A ARG* 1.3 63.2 + - - +
146A GLU* 3.2 8.8 + - - +
147A ILE* 3.0 30.8 + - + +
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Residues in contact with ARG 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A LEU* 2.8 58.7 + - + +
19A ALA* 4.0 4.9 - - - +
21A MET* 5.2 3.1 - - + -
22A ARG* 3.2 45.3 - - - +
26A LEU* 5.9 0.2 - - - +
67A PHE* 4.6 7.6 - - + -
76A TRP* 3.7 25.8 - - + -
140A TRP 2.7 21.3 + - - +
141A GLU* 2.6 33.0 + - - +
143A VAL* 1.3 75.0 - - - +
145A ALA* 1.3 58.5 + - - +
147A ILE* 3.3 7.6 + - - +
148A MET* 2.8 52.1 + - - +
46B MET* 5.0 2.0 - - - -
100B TRP* 5.3 1.4 - - - +
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Residues in contact with ALA 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 4.1 9.2 - - + -
141A GLU 2.9 15.2 + - - +
142A VAL* 3.0 13.9 + - - +
144A ARG* 1.3 79.3 - - - +
146A GLU* 1.3 56.7 + - - +
148A MET* 3.2 2.6 + - - +
149A ARG* 2.8 31.3 + - - +
46B MET* 3.4 51.4 - - + +
47B SER 5.1 0.9 - - - +
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Residues in contact with GLU 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A PHE* 3.6 28.1 - - + +
38A PHE* 4.2 4.6 - - - +
122A TYR* 2.7 36.1 + - + +
126A ILE* 4.9 4.5 - - + -
142A VAL* 2.9 12.7 + - + +
143A VAL* 3.4 11.2 - - - +
145A ALA* 1.3 77.0 - - - +
147A ILE* 1.3 51.5 + - - +
149A ARG* 3.1 8.0 + - - +
150A SER* 2.6 38.2 + - - -
47B SER* 2.6 32.0 + - - +
48B LYS* 2.7 28.5 + - - -
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Residues in contact with ILE 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A LEU* 4.8 11.0 - - + -
63A ILE* 4.2 34.5 - - + -
66A LEU* 4.7 3.1 - - + -
67A PHE* 4.3 20.6 - - + -
84A PHE* 5.6 0.2 - - + -
122A TYR* 4.7 1.1 - - + -
123A PHE* 3.7 31.0 - - + -
126A ILE* 3.7 24.7 - - + -
143A VAL* 3.0 20.7 + - + +
144A ARG* 3.7 8.1 - - - +
146A GLU* 1.3 77.2 - - - +
148A MET* 1.3 56.9 + - - +
150A SER* 3.0 7.9 + - - +
151A PHE* 2.9 35.0 + - + +
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Residues in contact with MET 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A LEU* 3.1 44.2 - - + +
18A LEU* 3.7 17.7 - - + +
19A ALA* 3.4 24.0 - - + +
144A ARG* 2.8 38.4 + - - +
145A ALA* 3.3 7.9 - - - +
146A GLU 3.1 0.2 - - - -
147A ILE* 1.3 78.7 - - - +
149A ARG* 1.3 51.1 + - - +
151A PHE* 4.4 0.8 - - - +
152A SER* 2.6 35.2 + - - -
46B MET* 3.6 13.2 - - + -
100B TRP* 3.2 38.8 - - + +
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Residues in contact with ARG 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A PHE* 5.1 10.4 - - + +
40A GLN* 3.9 14.3 - - - +
145A ALA 2.8 16.4 + - - +
146A GLU* 3.6 10.5 - - - +
148A MET* 1.3 74.9 - - - +
150A SER* 1.3 65.6 + - - +
152A SER* 2.9 14.7 + - - -
153A LEU* 3.2 46.4 - - + +
45B ILE* 4.8 8.9 - - - +
46B MET* 4.7 2.7 - - + -
47B SER* 3.6 30.4 + - - +
74B SER* 3.7 11.9 + - - -
77B GLU* 2.9 43.5 + - - +
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Residues in contact with SER 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A PHE* 3.4 42.3 - - - -
59A MET* 3.8 12.0 - - - +
122A TYR* 4.1 10.5 + - - -
146A GLU 2.6 22.9 + - - -
147A ILE* 3.0 19.2 + - - +
149A ARG* 1.3 75.2 - - - +
151A PHE* 1.3 57.0 + - - +
153A LEU* 3.1 5.9 + - - +
154A SER* 2.6 30.0 + - - -
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Residues in contact with PHE 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A GLY 5.1 0.2 - - - -
11A SER* 3.9 27.1 - - - -
14A THR* 3.5 43.7 - - + -
15A LEU* 5.0 7.6 - - + -
18A LEU* 5.1 6.5 - - + -
59A MET* 4.0 5.6 - - - +
60A ILE* 4.0 30.3 - - + -
63A ILE* 4.0 24.7 - - + -
88A LEU* 5.2 2.9 - - + -
91A GLN* 5.3 6.1 - - + -
147A ILE* 2.9 21.7 + - + +
148A MET* 4.4 3.1 - - - +
150A SER* 1.3 76.2 + - - +
152A SER* 1.3 66.2 + - - +
154A SER* 2.9 26.8 + - - -
155A THR* 3.4 16.8 + - + -
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Residues in contact with SER 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A SER* 6.2 0.4 - - - -
15A LEU* 4.6 12.1 - - - -
148A MET 2.6 24.6 + - - -
149A ARG* 2.9 17.3 + - - -
151A PHE* 1.3 82.4 - - - +
153A LEU* 1.3 57.4 + - - +
155A THR* 3.6 3.1 + - - -
156A ASN* 3.1 24.9 + - - +
159A GLU* 3.5 1.0 - - - +
76B HIS* 3.2 51.2 + - - -
77B GLU* 5.7 0.3 - - - +
100B TRP* 5.1 0.7 - - - -
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Residues in contact with LEU 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A PHE* 4.1 15.3 - - + -
40A GLN* 4.1 17.7 - - + +
43A PHE* 4.7 7.8 - - - +
44A GLY* 5.7 0.9 + - - -
149A ARG* 3.2 56.3 - - - +
150A SER 3.1 6.1 + - - +
152A SER* 1.3 80.8 + - - +
154A SER* 1.3 62.1 + - - +
156A ASN* 3.4 34.0 + - + +
157A LEU* 4.0 10.4 - - - +
76B HIS* 4.5 14.4 - - + +
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Residues in contact with SER 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A PHE* 3.5 13.5 - - - -
52A THR* 4.4 0.2 - - - +
56A LEU* 3.5 35.5 - - - +
59A MET* 3.3 24.5 - - - +
150A SER 2.6 18.9 + - - -
151A PHE* 2.9 18.3 + - - -
153A LEU* 1.3 77.2 - - - +
155A THR* 1.3 59.1 + - - +
156A ASN 3.2 3.8 - - - -
157A LEU* 3.3 23.6 - - - +
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Residues in contact with THR 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A SER* 3.2 23.7 - - - +
56A LEU* 4.7 13.9 - - + -
91A GLN* 6.4 2.0 - - + -
95A LEU* 6.2 2.0 - - + -
151A PHE* 3.6 19.0 + - + +
152A SER* 3.6 5.9 + - - -
154A SER* 1.3 76.6 - - - +
156A ASN* 1.3 57.4 + - - +
157A LEU* 2.9 13.5 + - - +
158A GLN* 3.1 14.8 + - - +
159A GLU* 3.0 35.6 + - - +
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Residues in contact with ASN 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A SER 3.1 18.6 + - - +
153A LEU* 3.4 32.1 + - - +
154A SER 3.2 0.8 - - - -
155A THR* 1.3 76.6 - - - +
157A LEU* 1.3 56.7 + - - +
158A GLN 3.1 0.4 - - - -
159A GLU* 3.2 10.5 + - - +
160A SER* 2.8 57.2 + - - -
76B HIS* 3.9 11.1 - - - +
136B GLN* 2.8 32.3 + - - +
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Residues in contact with LEU 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A PHE* 3.4 20.9 - - + +
44A GLY* 3.9 17.5 - - - +
47A PHE 3.4 24.0 - - - +
48A GLN* 3.9 38.3 - - + +
52A THR* 4.2 15.3 - - + +
153A LEU 4.0 11.0 - - - +
154A SER* 3.3 24.5 - - - +
155A THR* 2.9 1.7 + - - +
156A ASN* 1.3 77.9 - - - +
158A GLN* 1.3 71.2 + - - +
160A SER* 4.4 9.7 + - - +
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Residues in contact with GLN 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A GLN* 5.0 25.4 + - + +
48A GLN* 4.4 22.6 + - - +
49A LYS* 4.3 23.1 - - - +
50A ALA 5.1 1.2 + - - -
155A THR 3.1 7.3 + - - +
156A ASN 3.1 0.2 - - - -
157A LEU* 1.3 85.4 + - + +
159A GLU* 1.3 65.6 + - + +
160A SER 3.2 8.2 + - - +
161A LEU* 4.6 10.4 - - - +
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Residues in contact with GLU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A SER* 5.3 7.9 - - - -
11A SER* 2.6 30.5 + - - -
12A ARG* 5.9 0.2 - - - +
155A THR* 3.0 23.3 + - - +
156A ASN* 3.2 21.1 + - - +
158A GLN* 1.3 78.4 - - + +
160A SER* 1.3 60.7 + - - +
161A LEU* 3.5 6.6 + - - +
76B HIS* 2.7 35.1 + - + +
136B GLN* 2.9 27.5 + - - +
137B PHE 6.1 0.2 - - - -
138B ASP* 5.2 23.7 - - + +
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Residues in contact with SER 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ASN* 2.8 42.9 + - - -
157A LEU* 4.4 8.8 - - - +
158A GLN 3.2 4.0 - - - +
159A GLU* 1.3 76.6 - - - +
161A LEU* 1.3 72.6 + - - +
162A ARG* 3.8 2.5 - - - -
136B GLN* 3.6 8.7 + - - +
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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
------------------------------------------------------------
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