Contacts of the helix formed by residues 134 - 159 (chain A) in PDB entry 4ZTZ
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 134 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88A PHE 6.1 0.7 - - - -
130A LEU* 5.5 2.6 - - - +
132A GLY* 3.9 7.0 + - - -
133A ASP* 1.3 80.3 - - + +
135A LEU* 1.3 64.3 + - + +
136A ASP* 3.5 15.3 + - - +
137A GLN* 2.8 38.3 + - - +
138A HIS* 3.3 15.6 + - - +
1166A TYR* 2.4 49.4 + - + +
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Residues in contact with LEU 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A PHE* 5.3 24.9 - - + +
130A LEU* 6.6 0.2 - - - -
134A ASN* 1.3 76.2 - - + +
136A ASP* 1.3 60.2 + - - +
138A HIS* 3.5 12.3 - - + -
139A PHE* 2.9 41.7 + - + -
1159A LEU* 3.6 20.6 - - + +
1162A CYS* 3.7 12.1 - - + +
1163A MET* 3.5 40.8 - - + +
1166A TYR* 3.7 36.3 - - + -
1171A ASN* 5.7 1.8 - - + -
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Residues in contact with ASP 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ASN* 3.3 21.9 + - - +
135A LEU* 1.3 83.7 - - - +
137A GLN* 1.3 61.9 + - - +
139A PHE* 3.5 2.3 + - - +
140A ARG* 2.9 53.3 + - - +
420A HIS* 3.4 8.0 + - - -
1163A MET* 3.7 9.5 - - - +
1166A TYR* 3.7 13.0 - - + -
1167A LYS* 2.8 30.0 + - - +
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Residues in contact with GLN 137 (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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132A GLY 3.2 15.3 - - - +
133A ASP* 2.8 37.8 + - - +
134A ASN* 2.8 26.1 + - - +
136A ASP* 1.3 76.3 - - - +
138A HIS* 1.3 59.8 + - - +
140A ARG* 3.7 14.1 - - - +
141A LEU* 2.9 38.9 + - + +
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Residues in contact with HIS 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A PRO 4.1 10.5 - - - -
130A LEU* 4.5 7.4 - - + -
131A TYR* 3.3 51.3 + + - +
132A GLY 4.5 1.0 + - - +
134A ASN 3.3 8.6 + - - +
135A LEU* 3.2 21.7 + - + +
136A ASP 3.1 0.4 - - - -
137A GLN* 1.3 78.5 - - - +
139A PHE* 1.3 77.3 + + - +
141A LEU* 3.8 3.3 - - - +
142A LEU* 2.9 58.8 + - + +
1118A TRP* 4.1 16.9 + + - -
1159A LEU* 4.7 12.0 - - + +
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Residues in contact with PHE 139 (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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135A LEU* 2.9 32.4 + - + +
136A ASP 4.0 2.5 - - - +
138A HIS* 1.3 90.4 - + - +
140A ARG* 1.3 56.6 + - - +
142A LEU* 3.7 10.6 - - + +
143A ALA* 2.9 31.7 + - - +
420A HIS* 5.1 2.0 - - + -
422A VAL* 3.8 12.4 - - + +
1111A LEU* 3.5 32.3 - - + -
1114A VAL* 4.0 13.3 - - + +
1115A ALA* 3.6 30.7 - - + -
1159A LEU* 3.8 44.9 - - + -
1160A THR* 4.5 4.0 - - - -
1163A MET* 3.5 18.2 - - + -
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Residues in contact with ARG 140 (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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136A ASP* 2.9 39.1 + - - +
137A GLN* 3.8 13.6 - - - +
138A HIS 3.1 0.2 - - - -
139A PHE* 1.3 74.7 - - - +
141A LEU* 1.3 61.7 + - + +
143A ALA 3.4 0.7 + - - -
144A GLN* 2.9 56.9 + - - +
419A PRO 5.0 2.2 + - - -
420A HIS* 3.1 43.3 + - + +
421A PRO* 3.6 21.7 - - + +
1167A LYS* 4.7 2.0 - - - +
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Residues in contact with LEU 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A TYR* 4.6 24.7 - - + +
132A GLY 4.7 8.3 - - - +
137A GLN* 2.9 25.4 + - + +
138A HIS* 3.9 2.7 - - - +
140A ARG* 1.3 75.2 - - + +
142A LEU* 1.3 61.0 + - + +
144A GLN* 3.8 20.2 - - + +
145A LYS* 2.9 33.8 + - - +
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Residues in contact with LEU 142 (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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131A TYR* 4.5 8.1 - - + -
138A HIS* 2.9 54.2 + - + +
139A PHE* 3.7 15.0 - - + +
141A LEU* 1.3 77.6 - - + +
143A ALA* 1.3 57.4 + - - +
145A LYS* 3.1 22.5 - - + +
146A GLN* 2.9 41.2 + - - +
1114A VAL* 5.0 6.5 - - + +
1115A ALA* 5.2 1.3 - - - -
1118A TRP* 3.5 53.6 - - + -
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Residues in contact with ALA 143 (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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139A PHE 2.9 19.2 + - - +
142A LEU* 1.3 76.2 - - - +
144A GLN* 1.3 52.3 + - - +
146A GLN* 3.5 3.8 + - - -
147A SER* 2.6 38.7 + - - -
421A PRO* 3.4 37.0 - - + +
422A VAL* 3.4 12.6 - - + +
425A ALA* 3.7 13.8 - - + +
1114A VAL* 4.7 4.4 - - + +
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Residues in contact with GLN 144 (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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140A ARG* 2.9 43.9 + - - +
141A LEU* 3.8 22.2 - - + +
143A ALA* 1.3 73.6 - - - +
145A LYS* 1.3 57.1 + - - +
146A GLN 3.1 4.7 - - - -
147A SER* 3.6 4.7 - - - -
148A LEU* 2.8 39.5 + - + +
151A LEU* 6.5 0.7 - - + -
421A PRO* 3.7 17.8 - - + +
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Residues in contact with LYS 145 (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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131A TYR* 6.0 4.3 - - + +
141A LEU* 2.9 17.5 + - + +
142A LEU* 3.1 35.9 - - + +
144A GLN* 1.3 76.4 - - - +
146A GLN* 1.3 65.1 + - + +
148A LEU* 4.3 7.9 - - - +
149A PRO* 4.3 9.5 - - - +
1118A TRP* 6.2 0.2 - - + -
1121A GLU* 5.6 3.4 + - - -
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Residues in contact with GLN 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LEU* 2.9 25.1 + - - +
143A ALA* 3.8 4.0 - - - +
145A LYS* 1.3 88.7 - - + +
147A SER* 1.3 58.3 + - - +
148A LEU 3.5 0.7 - - - -
149A PRO* 4.2 2.2 - - - +
150A TYR* 3.1 25.3 - - - -
425A ALA* 3.9 9.3 - - + +
428A LEU* 4.7 1.0 - - - +
1114A VAL* 3.3 47.1 + - - +
1117A LYS* 3.7 39.3 + - + +
1118A TRP* 3.5 25.5 - - - +
1121A GLU* 5.7 3.1 + - - +
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Residues in contact with SER 147 (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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143A ALA 2.6 23.5 + - - -
144A GLN* 3.6 4.7 + - - -
146A GLN* 1.3 77.0 - - - +
148A LEU* 1.3 59.5 + - - +
149A PRO* 3.5 2.5 - - - -
150A TYR* 3.6 8.9 + - - +
151A LEU* 3.0 34.4 + - - +
421A PRO* 4.4 7.3 + - - +
424A LEU* 4.5 15.4 - - - +
425A ALA* 4.1 12.6 - - - +
428A LEU* 3.7 20.0 - - - -
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Residues in contact with LEU 148 (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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144A GLN* 2.8 22.5 + - + +
145A LYS* 4.5 6.1 - - - +
147A SER* 1.3 75.5 - - - +
149A PRO* 1.4 74.1 - - + +
151A LEU* 3.2 8.3 + - - +
152A GLU* 2.9 59.7 + - + +
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Residues in contact with PRO 149 (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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145A LYS 4.3 8.3 - - - +
146A GLN 4.2 9.9 - - - +
147A SER 3.7 1.6 - - - -
148A LEU* 1.4 99.9 - - + +
150A TYR* 1.3 67.1 + - + +
152A GLU* 3.3 15.5 + - - +
153A ALA* 2.9 25.0 + - - +
193A ARG* 3.5 7.9 + - - +
262A GLN* 3.3 42.6 - - + +
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Residues in contact with TYR 150 (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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146A GLN 3.1 27.6 - - - -
147A SER* 3.9 5.8 - - - +
148A LEU 3.2 0.4 - - - -
149A PRO* 1.3 83.2 - - + +
151A LEU* 1.3 60.4 + - - +
153A ALA* 4.3 5.2 - - - -
154A ALA* 2.9 25.5 + - - +
262A GLN 4.8 8.7 + - - -
263A GLU 5.4 0.4 - - - -
264A GLN 3.2 28.7 - - - -
265A LEU* 3.2 26.6 - - + +
288A ARG* 2.8 36.2 + - - -
290A ARG* 3.4 39.9 + - + +
292A LEU* 5.9 1.1 - - + -
424A LEU* 6.0 1.3 - - + -
428A LEU* 3.7 25.1 - - + -
1117A LYS* 4.9 5.8 + - - -
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Residues in contact with LEU 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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144A GLN* 6.5 1.1 - - + -
147A SER* 3.0 27.7 + - - +
148A LEU* 3.6 7.4 - - - +
150A TYR* 1.3 73.9 - - - +
152A GLU* 1.3 59.9 + - - +
154A ALA* 3.3 4.4 + - + +
155A ASN* 2.9 43.7 + - - +
411A LEU* 4.7 13.0 - - + -
415A LEU* 4.2 26.2 - - + -
421A PRO* 6.4 1.3 - - + -
424A LEU* 3.6 36.3 - - + -
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Residues in contact with GLU 152 (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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148A LEU* 2.9 43.5 + - + +
149A PRO* 3.3 11.9 + - - +
151A LEU* 1.3 76.5 - - + +
153A ALA* 1.3 57.0 + - - +
155A ASN* 3.2 12.4 + - - +
156A LEU* 2.9 33.5 + - + +
193A ARG* 3.8 20.1 + - - +
262A GLN 5.5 0.9 + - - -
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Residues in contact with ALA 153 (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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149A PRO 2.9 16.3 + - - +
150A TYR 3.7 4.9 - - - +
152A GLU* 1.3 73.4 - - - +
154A ALA* 1.3 60.6 + - - +
156A LEU* 3.0 15.9 + - - +
157A LEU* 2.9 29.6 + - - +
193A ARG* 4.1 15.2 - - - +
194A ALA* 3.6 22.6 - - + +
264A GLN 5.4 0.9 - - - -
265A LEU* 3.7 17.5 - - + +
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Residues in contact with ALA 154 (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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150A TYR 2.9 17.6 + - - +
151A LEU* 3.5 10.8 - - + +
153A ALA* 1.3 75.4 - - - +
155A ASN* 1.3 59.5 + - - +
157A LEU* 3.0 6.1 + - - +
158A LEU* 2.9 33.4 + - - +
265A LEU* 3.5 10.0 - - + +
292A LEU* 6.3 1.6 - - + -
407A PHE* 3.7 25.1 - - + -
411A LEU* 4.3 18.2 - - + -
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Residues in contact with ASN 155 (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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151A LEU* 2.9 33.1 + - - +
152A GLU* 3.5 9.9 - - - +
154A ALA* 1.3 75.6 - - - +
156A LEU* 1.3 60.0 + - + +
158A LEU* 3.5 19.9 - - - +
159A GLN* 3.1 35.9 + - - +
411A LEU* 4.3 9.9 - - - +
415A LEU* 5.5 2.6 - - - +
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Residues in contact with LEU 156 (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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152A GLU* 2.9 20.1 + - + +
153A ALA* 3.0 14.8 + - - +
155A ASN* 1.3 78.5 - - + +
157A LEU* 1.3 58.8 + - - +
159A GLN* 4.0 21.1 + - - +
160A ALA* 3.5 13.5 + - - +
193A ARG* 4.1 41.1 - - + +
194A ALA* 5.5 1.3 - - + -
217A PRO* 3.4 26.3 - - + +
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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
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153A ALA 2.9 14.1 + - - +
154A ALA* 3.0 11.0 + - - +
156A LEU* 1.3 78.1 - - - +
158A LEU* 1.3 59.4 + - - +
160A ALA* 3.3 7.2 - - + +
194A ALA* 3.8 27.4 - - + +
195A LEU* 4.1 10.8 - - - +
196A VAL* 4.7 8.5 - - + +
215A ILE* 5.0 2.5 - - + +
216A SER* 5.2 0.7 - - - -
217A PRO* 3.7 26.5 - - + -
265A LEU* 4.8 1.3 - - + -
267A VAL* 3.9 28.5 - - + -
404A HIS* 3.3 14.5 + - + +
407A PHE* 3.8 25.4 - - + -
408A GLN* 3.0 21.1 + - - -
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Residues in contact with LEU 158 (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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154A ALA 2.9 20.1 + - - +
155A ASN* 3.1 19.9 + - - +
157A LEU* 1.3 74.0 - - - +
159A GLN* 1.3 57.6 + - - +
160A ALA 3.1 9.2 + - - +
407A PHE* 3.7 21.8 - - + -
408A GLN* 3.4 43.2 + - + +
411A LEU* 3.9 28.7 - - + -
412A PRO* 4.4 16.2 - - + -
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Residues in contact with GLN 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A ASN* 3.1 18.4 + - - +
156A LEU* 4.0 26.2 - - + +
158A LEU* 1.3 74.7 - - - +
160A ALA* 1.3 62.8 + - - +
161A GLN* 3.3 10.8 + - - +
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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