Contacts of the helix formed by residues 140 - 164 (chain K) in PDB entry 6D6Q
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 ASN 140 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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184E ASP* 5.5 6.1 - - - +
185E ASP* 5.4 3.1 - - - +
135K GLN* 4.2 0.7 - - - -
138K GLY 4.2 0.8 - - - -
139K GLU* 1.3 77.6 + - - +
141K ALA* 1.3 68.3 + - - +
142K ASN* 3.2 9.2 - - + +
143K ASP* 3.1 11.5 + - + +
144K ARG* 2.9 18.4 + - - +
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Residues in contact with ALA 141 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135K GLN* 4.5 4.5 - - - +
140K ASN* 1.3 74.7 - - - +
142K ASN* 1.3 63.9 + - - +
144K ARG* 3.1 12.3 + - + +
145K ASN* 2.9 32.6 + - - +
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Residues in contact with ASN 142 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97K GLU* 4.4 10.7 - - - +
101K ARG* 5.4 10.8 - - - +
140K ASN* 3.2 6.6 - - + +
141K ALA* 1.3 77.5 - - - +
143K ASP* 1.3 54.3 + - - +
145K ASN* 3.3 7.0 + - - +
146K ASN* 2.7 55.5 + - - +
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Residues in contact with ASP 143 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139K GLU* 3.5 33.5 - - + +
140K ASN* 3.1 21.6 + - + +
142K ASN* 1.3 75.5 - - - +
144K ARG* 1.3 66.4 + - - +
146K ASN* 3.3 10.0 + - - +
147K ARG* 2.9 29.1 + - - +
150K ARG* 4.6 11.0 + - - -
183K LYS* 4.9 9.5 + - - -
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Residues in contact with ARG 144 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126K GLU* 2.8 34.0 + - - -
132K TYR* 3.4 16.6 + - - +
133K VAL* 2.9 52.0 + - - +
134K GLU* 4.4 10.6 - - - +
135K GLN* 3.1 32.5 - - + +
139K GLU* 5.6 0.2 - - - -
140K ASN 2.9 9.0 + - - +
141K ALA* 3.1 12.3 + - - +
143K ASP* 1.3 77.0 + - - +
145K ASN* 1.3 71.6 + - - +
147K ARG* 3.8 13.0 - - - +
148K ALA* 2.9 45.4 + - - +
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Residues in contact with ASN 145 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93K THR* 3.5 30.2 + - - +
96K GLN* 5.5 2.1 - - - +
97K GLU* 2.6 37.9 + - - +
126K GLU* 4.5 0.7 - - - +
141K ALA* 2.9 24.7 + - - +
142K ASN* 3.7 5.3 - - - +
144K ARG* 1.3 89.6 + - - +
146K ASN* 1.3 58.2 + - - +
148K ALA* 3.2 5.9 + - - +
149K ILE* 2.9 38.8 + - + +
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Residues in contact with ASN 146 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69K ASP* 4.0 19.2 - - - +
142K ASN* 2.7 48.6 + - - +
143K ASP* 3.7 10.2 + - - +
145K ASN* 1.3 76.8 - - - +
147K ARG* 1.3 62.6 + - - +
149K ILE* 3.2 9.7 + - - +
150K ARG* 3.0 42.9 + - - +
180K ASN* 5.1 14.3 + - - +
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Residues in contact with ARG 147 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133K VAL* 3.6 21.6 - - + +
134K GLU 2.7 31.1 + - - -
135K GLN* 4.1 4.4 - - - +
136K GLU* 3.7 17.4 - - - +
139K GLU* 2.3 41.4 + - - -
143K ASP* 2.9 20.8 + - - +
144K ARG* 3.8 11.3 + - - +
146K ASN* 1.3 75.6 - - - +
148K ALA* 1.3 57.4 + - - +
150K ARG* 3.3 27.9 + - + +
151K VAL* 2.9 44.0 + - + +
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Residues in contact with ALA 148 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93K THR* 4.6 1.6 - - + -
125K ASN* 4.5 15.8 + - - +
126K GLU* 4.6 5.2 - - - +
131K THR* 3.9 8.1 + - - +
132K TYR* 6.2 0.4 - - - -
133K VAL* 3.9 11.8 - - + +
144K ARG* 2.9 38.2 + - - +
145K ASN* 3.5 7.9 - - - +
146K ASN 3.2 0.2 - - - -
147K ARG* 1.3 77.2 - - - +
149K ILE* 1.3 57.9 + - - +
151K VAL* 3.3 5.0 + - - +
152K ALA* 2.9 28.2 + - - +
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Residues in contact with ILE 149 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67K LEU* 4.2 2.8 - - + +
68K PRO 4.9 1.8 - - - +
69K ASP* 3.1 27.1 - - - +
70K THR* 5.0 3.6 - - - +
91K LEU* 3.6 26.6 - - + +
93K THR* 3.5 22.0 - - - +
94K VAL* 3.8 14.8 - - + +
97K GLU* 5.7 0.9 - - - +
125K ASN* 5.2 1.1 - - - +
145K ASN* 2.9 26.4 + - + +
146K ASN* 3.6 9.0 - - - +
148K ALA* 1.3 76.1 - - - +
150K ARG* 1.3 57.6 + - - +
152K ALA* 3.2 3.9 + - - +
153K ALA* 2.9 26.7 + - - +
173K PHE* 3.4 34.1 - - + -
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Residues in contact with ARG 150 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143K ASP* 4.6 10.7 + - - -
146K ASN* 3.0 33.4 + - - +
147K ARG* 3.4 40.0 - - + +
148K ALA 3.2 0.2 - - - -
149K ILE* 1.3 76.6 - - - +
151K VAL* 1.3 63.2 + - + +
153K ALA* 3.2 8.1 + - - +
154K LYS* 3.0 23.9 + - - +
173K PHE* 5.3 11.7 - - + -
180K ASN* 5.6 3.5 + - - -
183K LYS* 3.9 31.3 - - - +
184K ALA* 4.7 19.1 - - + +
187K GLU* 4.2 29.7 - - + +
189K ILE* 4.8 7.8 - - + +
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Residues in contact with VAL 151 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130K GLU 4.2 5.6 - - - +
131K THR* 3.5 32.3 - - - +
132K TYR 5.2 1.1 - - - +
133K VAL* 4.9 9.6 - - + -
147K ARG* 2.9 32.8 + - + +
148K ALA* 3.7 6.5 - - - +
150K ARG* 1.3 76.2 - - + +
152K ALA* 1.3 62.5 + - - +
154K LYS* 3.3 6.6 + - + +
155K TRP* 2.9 24.5 + - + +
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Residues in contact with ALA 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67K LEU* 5.4 1.1 - - + -
91K LEU* 4.2 25.4 - - + -
123K PHE* 5.2 4.9 - - + -
125K ASN* 4.8 6.7 - - + +
131K THR* 3.2 22.3 + - + +
148K ALA 2.9 12.2 + - - +
149K ILE* 3.5 9.9 - - - +
151K VAL* 1.3 77.0 - - - +
153K ALA* 1.3 58.3 + - - +
155K TRP* 3.2 5.7 + - - +
156K TYR* 2.9 37.1 + - + +
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Residues in contact with ALA 153 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67K LEU* 4.5 15.0 - - + +
149K ILE 2.9 14.6 + - - +
150K ARG* 3.5 9.4 - - - +
152K ALA* 1.3 76.2 - - - +
154K LYS* 1.3 62.9 + - - +
156K TYR* 3.1 8.8 + - - +
157K ASN* 3.0 29.2 + - - +
171K VAL* 4.5 2.7 - - + +
172K ILE 6.2 0.4 - - - -
173K PHE* 4.6 17.7 - - + -
189K ILE* 4.0 20.9 - - + -
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Residues in contact with LYS 154 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150K ARG 3.0 15.9 + - - +
151K VAL* 3.8 6.7 - - + +
153K ALA* 1.3 76.2 - - - +
155K TRP* 1.3 64.3 + - - +
157K ASN* 3.2 12.7 + - + +
158K GLU* 3.0 26.5 + - + +
187K GLU 4.0 15.9 + - - +
188K GLY* 4.3 8.6 + - - +
189K ILE* 3.9 20.8 - - + +
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Residues in contact with TRP 155 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29K ILE 5.9 0.7 - - - -
31K CYS* 3.5 28.9 - - - -
39K CYS* 5.4 2.2 - - - -
123K PHE* 3.4 34.1 - + - -
128K HIS* 3.9 25.4 - + - -
130K GLU* 2.2 41.1 + - + -
131K THR* 5.0 11.0 - - - -
151K VAL* 2.9 19.8 + - + +
152K ALA* 3.6 7.9 - - - +
154K LYS* 1.3 77.5 - - - +
156K TYR* 1.3 73.4 + + - +
158K GLU* 3.3 7.3 + - + +
159K HIS* 2.9 50.3 + + + +
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Residues in contact with TYR 156 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31K CYS* 2.6 49.8 + - + -
48K LEU* 6.4 0.2 - - + -
65K TYR* 6.1 0.2 - + - -
67K LEU* 4.2 13.2 - - + -
89K ILE* 3.2 49.5 - - + +
91K LEU* 5.4 1.8 - - + -
123K PHE* 4.2 21.3 - + - +
152K ALA* 2.9 19.5 + - + +
153K ALA* 3.1 11.2 + - - +
155K TRP* 1.3 90.1 - + - +
157K ASN* 1.3 62.4 + - - +
159K HIS* 4.5 1.8 - - + -
160K LEU* 3.0 50.6 + - + +
171K VAL* 4.0 13.9 - - + -
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Residues in contact with ASN 157 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153K ALA* 3.0 18.4 + - - +
154K LYS* 3.5 9.6 - - + +
156K TYR* 1.3 76.1 - - - +
158K GLU* 1.3 63.2 + - - +
160K LEU* 3.8 2.2 - - - +
161K LYS* 2.9 33.3 + - - +
170K GLN* 5.2 6.1 - - - +
171K VAL* 2.7 37.1 + - - +
188K GLY 5.1 0.2 + - - -
189K ILE* 3.4 37.2 - - - +
190K PRO* 3.8 13.5 - - - +
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Residues in contact with GLU 158 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154K LYS* 3.0 18.1 + - + +
155K TRP* 3.8 11.4 - - + +
157K ASN* 1.3 77.9 - - - +
159K HIS* 1.3 64.0 + - - +
161K LYS* 2.9 34.9 + - - +
162K LYS* 3.0 26.5 + - + +
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Residues in contact with HIS 159 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31K CYS* 3.3 14.4 - - + -
36K CYS* 3.1 16.9 - - + +
37K ALA 5.2 3.8 - - - -
38K ALA* 5.9 1.6 - - + -
39K CYS* 3.2 14.8 - - - -
155K TRP* 2.9 39.7 + + + +
156K TYR* 3.9 5.6 - + - +
158K GLU* 1.3 78.8 - - - +
160K LEU* 1.3 74.4 + - + +
161K LYS 3.0 1.4 + - - -
162K LYS* 3.1 32.8 + - - +
163K MET* 3.1 20.1 + - + +
2002K ZN 1.9 36.9 - - - -
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Residues in contact with LEU 160 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31K CYS* 5.9 0.9 - - + -
33K ALA* 4.6 16.2 - - + -
36K CYS* 5.3 0.4 - - + -
65K TYR* 4.2 22.4 - - + -
156K TYR* 3.0 41.9 + - + +
157K ASN* 3.8 2.7 - - - +
159K HIS* 1.3 83.1 - - + +
161K LYS* 1.3 58.7 + - - +
163K MET* 3.8 44.6 + - + +
164K SER 4.3 1.4 + - - -
166K ASP* 2.9 12.8 - - - +
169K LEU* 4.8 21.4 - - + +
170K GLN* 5.1 5.2 - - - +
171K VAL* 4.2 19.7 - - + +
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Residues in contact with LYS 161 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157K ASN* 2.9 29.2 + - - +
158K GLU* 2.9 28.4 + - - +
160K LEU* 1.3 78.3 - - - +
162K LYS* 1.3 60.4 + - - +
164K SER 3.1 13.5 - - - +
166K ASP* 2.6 40.3 - - - +
170K GLN* 5.5 1.8 - - - +
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Residues in contact with LYS 162 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38K ALA* 6.5 0.9 - - - -
158K GLU* 3.0 24.9 + - + +
159K HIS* 3.3 39.9 + - - +
161K LYS* 1.3 76.0 - - - +
163K MET* 1.3 68.6 + - - +
164K SER* 3.4 1.9 - - - +
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Residues in contact with MET 163 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33K ALA* 5.1 2.0 - - + -
35K GLY* 3.2 22.4 - - - +
36K CYS* 3.0 42.8 - - + -
37K ALA 5.1 0.2 - - - +
159K HIS* 3.1 16.6 + - + +
160K LEU* 3.8 33.9 - - + +
161K LYS 3.2 1.0 - - - -
162K LYS* 1.3 82.7 - - - +
164K SER* 1.3 71.7 + - - +
168K GLN* 6.1 2.0 - - + -
169K LEU* 4.0 24.7 - - + -
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Residues in contact with SER 164 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160K LEU 4.3 2.4 + - - -
161K LYS 3.1 16.4 + - - +
162K LYS 4.3 1.8 - - - +
163K MET* 1.3 92.9 - - - +
165K ALA* 1.3 68.9 + - - +
166K ASP* 2.9 11.2 + - - +
168K GLN* 3.1 25.2 + - - +
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il