Contacts of the helix formed by residues 134 - 163 (chain F) in PDB entry 1SHZ
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 VAL 134 (chain F).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121F GLU* 6.1 0.4 - - - +
135F GLN* 1.3 70.0 + - - +
136F ARG* 3.2 6.7 - - - +
137F ARG* 2.9 62.5 + - + +
138F PHE* 3.3 29.3 + - + -
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Residues in contact with GLN 135 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84F LEU* 4.8 6.7 - - - +
92F ALA* 3.5 26.5 + - - +
93F LYS* 4.2 17.7 - - - +
96F PHE* 3.3 57.3 - - + +
134F VAL* 1.3 78.3 - - - +
136F ARG* 1.3 65.8 + - + +
138F PHE* 3.1 25.9 + - - +
139F VAL* 3.4 9.8 + - + +
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Residues in contact with ARG 136 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84F LEU* 5.6 2.0 - - - +
85F GLY* 3.8 29.5 - - - +
89F PRO* 3.2 35.4 - - - +
92F ALA* 5.8 1.8 - - - +
134F VAL 3.2 4.0 - - - +
135F GLN* 1.3 80.5 - - + +
137F ARG* 1.3 63.3 + - - +
138F PHE 3.1 1.2 + - - -
139F VAL* 3.4 7.2 + - - +
140F GLN* 3.1 27.4 + - - +
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Residues in contact with ARG 137 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118F VAL* 4.9 0.9 - - - +
121F GLU* 5.3 12.9 + - - +
134F VAL* 2.9 53.6 + - - +
136F ARG* 1.3 79.2 - - - +
138F PHE* 1.3 64.1 + - + +
140F GLN* 4.0 8.1 - - - +
141F GLU* 3.7 25.1 + - - +
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Residues in contact with PHE 138 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96F PHE* 4.5 19.1 - + + -
104F LEU* 5.9 2.5 - - + -
118F VAL* 3.4 32.8 - - + +
121F GLU* 3.5 59.2 - - + -
122F LEU* 5.4 7.9 - - + -
134F VAL* 3.3 34.5 + - + -
135F GLN* 3.1 14.2 + - - +
136F ARG 3.0 0.6 - - - -
137F ARG* 1.3 81.4 - - + +
139F VAL* 1.3 67.0 + - - +
141F GLU* 3.0 14.8 + - - +
142F VAL* 3.0 18.5 + - + +
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Residues in contact with VAL 139 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81F ALA* 3.8 21.1 - - + +
84F LEU* 5.0 12.6 - - + -
96F PHE* 3.6 31.6 - - + -
99F PHE* 3.7 20.0 - - + -
135F GLN* 3.4 8.2 + - + +
136F ARG* 3.4 7.6 + - - +
138F PHE* 1.3 74.7 - - - +
140F GLN* 1.3 53.6 + - - +
142F VAL* 2.8 27.1 + - - +
143F VAL* 2.8 36.6 + - + +
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Residues in contact with GLN 140 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136F ARG 3.1 16.7 + - - +
137F ARG* 4.0 8.7 - - - +
139F VAL* 1.3 80.4 - - - +
141F GLU* 1.3 78.4 + - - +
143F VAL* 4.2 5.9 - - - +
144F GLN* 3.0 42.0 + - - +
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Residues in contact with GLU 141 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115F PRO* 3.9 16.4 - - + +
117F ASN* 3.5 22.3 + - - +
118F VAL* 3.4 28.3 - - + -
137F ARG* 3.7 11.7 + - - +
138F PHE 3.0 11.7 + - - +
140F GLN* 1.3 106.6 + - - +
142F VAL* 1.3 62.2 + - - +
144F GLN* 3.3 12.8 + - - +
145F SER* 3.4 14.2 + - - -
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Residues in contact with VAL 142 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77F CYS* 3.5 28.0 - - - -
99F PHE* 4.1 11.2 - - + -
104F LEU* 3.4 31.9 - - + -
112F VAL* 4.3 11.0 - - + -
114F VAL* 4.4 11.4 - - + -
115F PRO* 4.7 5.2 - - + -
118F VAL* 4.9 10.1 - - + -
138F PHE* 3.0 14.1 + - + +
139F VAL* 2.8 16.2 + - - +
141F GLU* 1.3 68.7 - - - +
143F VAL* 1.3 62.9 + - - +
145F SER* 3.2 7.4 + - - -
146F GLN* 3.0 29.9 + - - +
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Residues in contact with VAL 143 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77F CYS* 5.2 2.9 - - - +
78F CYS* 4.2 26.0 - - + +
81F ALA* 3.3 32.8 - - + -
99F PHE* 5.5 0.2 - - + -
139F VAL* 2.8 30.2 + - + +
140F GLN* 4.2 6.1 - - - +
142F VAL* 1.3 70.2 - - + +
144F GLN* 1.3 54.1 + - - +
145F SER 2.8 14.5 + - - -
146F GLN* 3.0 18.3 + - - +
147F GLN* 3.5 18.6 + - - +
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Residues in contact with GLN 144 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140F GLN* 3.0 37.5 + - - +
141F GLU* 3.6 6.7 - - - +
142F VAL 3.3 0.6 - - - -
143F VAL* 1.3 74.7 - - - +
145F SER* 1.3 56.6 + - - +
146F GLN 3.7 0.2 - - - -
147F GLN* 3.3 36.1 - - - +
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Residues in contact with SER 145 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113F PRO* 3.2 19.9 + - - +
114F VAL 5.0 0.2 - - - -
115F PRO* 4.3 17.6 - - - +
141F GLU 3.4 9.8 + - - -
142F VAL 3.3 13.9 - - - -
143F VAL 2.8 0.8 + - - -
144F GLN* 1.3 80.4 - - - +
146F GLN* 1.3 74.0 + - - +
147F GLN* 3.3 2.5 - - - -
148F VAL* 4.7 4.9 + - - +
149F ALA* 5.1 2.9 + - - +
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Residues in contact with GLN 146 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74F PRO* 3.4 37.5 - - + +
77F CYS* 4.2 12.1 - - - -
78F CYS* 3.7 12.6 - - - -
112F VAL* 3.8 13.1 - - - +
113F PRO* 3.1 29.0 + - - +
142F VAL* 3.0 25.9 + - - +
143F VAL 3.0 2.6 + - - +
145F SER* 1.3 100.2 + - - +
147F GLN* 1.3 68.3 + - - +
148F VAL 3.3 1.1 - - - -
149F ALA* 2.9 9.5 + - - +
150F VAL* 2.7 41.3 + - + +
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Residues in contact with GLN 147 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49F LEU* 5.3 4.9 - - - +
78F CYS* 4.4 10.9 - - - -
143F VAL* 3.5 23.7 + - - +
144F GLN* 3.3 36.8 - - - +
145F SER 3.3 0.8 - - - -
146F GLN* 1.3 76.2 - - - +
148F VAL* 1.3 56.4 + - + +
150F VAL* 3.3 6.0 + - - +
151F GLY* 2.7 33.8 + - - -
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Residues in contact with VAL 148 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ASN* 3.6 50.3 - - + +
145F SER 4.7 5.1 + - - +
146F GLN 3.3 0.8 - - - -
147F GLN* 1.3 81.2 - - + +
149F ALA* 1.3 65.2 + - - +
151F GLY* 3.0 3.9 + - - +
152F ARG* 3.0 29.6 + - + +
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Residues in contact with ALA 149 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74F PRO* 4.2 22.7 - - + -
145F SER 5.1 2.2 + - - +
146F GLN* 2.9 14.8 + - - +
148F VAL* 1.3 77.4 - - - +
150F VAL* 1.3 62.5 + - - +
151F GLY 3.1 1.2 + - - -
152F ARG* 3.2 16.1 + - - +
153F GLN* 3.3 21.6 + - - +
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Residues in contact with VAL 150 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49F LEU* 4.4 19.3 - - + -
74F PRO* 3.8 17.9 - - + +
75F LEU* 3.5 29.2 - - + +
78F CYS* 3.8 13.0 - - - -
146F GLN* 2.7 42.6 + - + +
147F GLN* 3.8 5.8 - - - +
149F ALA* 1.3 71.6 - - - +
151F GLY* 1.3 60.3 + - - +
153F GLN* 3.6 12.3 + - - +
154F LEU* 3.4 27.6 + - + +
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Residues in contact with GLY 151 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147F GLN 2.7 14.2 + - - -
148F VAL* 3.0 5.1 + - - -
149F ALA 3.0 0.4 - - - -
150F VAL* 1.3 74.6 - - - +
152F ARG* 1.3 62.9 + - - +
153F GLN 2.9 5.6 + - - -
154F LEU* 3.1 17.6 + - - +
155F GLU* 3.1 14.6 + - - +
158F ARG* 5.5 0.5 + - - -
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Residues in contact with ARG 152 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A PRO* 4.4 24.7 - - - +
110A TRP* 5.6 5.7 - - - +
113A ASN* 5.2 12.6 + - - +
70F PHE* 4.8 5.5 - - + -
148F VAL* 3.0 19.9 + - + +
149F ALA* 3.2 11.6 + - - +
151F GLY* 1.3 74.1 - - - +
153F GLN* 1.3 59.1 + - + +
155F GLU* 4.0 18.7 + - - +
156F ASP* 3.2 26.0 + - - +
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Residues in contact with GLN 153 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62F LEU* 5.0 3.2 - - + +
65F HIS* 4.5 4.0 - - - -
66F VAL* 3.2 38.6 - - + +
70F PHE* 3.7 36.0 - - + +
71F GLU* 3.8 11.6 + - - +
74F PRO* 4.8 8.5 - - - +
75F LEU* 4.0 18.6 - - - +
149F ALA* 3.3 18.2 - - - +
150F VAL* 3.8 15.1 - - - +
151F GLY 3.0 1.0 - - - -
152F ARG* 1.3 79.2 - - + +
154F LEU* 1.3 60.6 - - - +
156F ASP* 3.5 7.5 + - - +
157F PHE* 2.8 26.7 + - - +
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Residues in contact with LEU 154 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46F PHE* 4.5 22.0 - - + -
47F GLN 4.1 11.7 - - - +
48F SER* 4.0 6.1 - - - -
49F LEU* 3.8 32.3 - - + +
52F VAL* 5.0 4.3 - - + -
62F LEU* 3.6 36.3 - - + -
75F LEU* 6.4 0.2 - - + -
150F VAL* 3.4 17.6 + - + +
151F GLY* 3.1 9.9 + - - +
153F GLN* 1.3 74.6 - - - +
155F GLU* 1.3 62.1 + - - +
157F PHE* 3.0 4.4 + - + +
158F ARG* 2.8 46.2 + - - +
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Residues in contact with GLU 155 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A ARG* 3.4 17.6 + - - +
104A GLU* 3.1 54.9 - - + +
107A HIS* 4.7 10.1 + - - -
108A ILE 5.5 0.3 + - - -
110A TRP* 5.1 3.3 + - - -
116A GLN* 5.4 4.2 - - - +
151F GLY 3.1 15.1 + - - +
152F ARG* 4.0 20.5 + - - +
154F LEU* 1.3 79.1 - - - +
156F ASP* 1.3 56.9 + - - +
158F ARG* 3.2 16.5 + - - +
159F SER* 2.9 32.7 + - - +
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Residues in contact with ASP 156 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273D ASP* 4.7 4.7 - - - +
65F HIS* 2.8 33.1 + - - -
69F GLN* 5.2 1.7 - - - +
70F PHE* 3.3 25.2 - - + -
152F ARG 3.2 18.3 + - - +
153F GLN 3.7 4.3 - - - +
154F LEU 3.2 0.4 - - - -
155F GLU* 1.3 80.4 - - - +
157F PHE* 1.3 57.7 + - - +
159F SER* 3.6 6.8 - - - -
160F LYS* 3.0 47.8 + - - +
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Residues in contact with PHE 157 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46F PHE* 3.4 61.5 - + + -
61F ALA* 3.9 9.9 - - + -
62F LEU* 3.7 26.2 - - + -
65F HIS* 3.4 44.2 - + + -
153F GLN 2.8 17.7 + - - +
154F LEU* 3.0 10.1 + - - +
156F ASP* 1.3 75.7 - - - +
158F ARG* 1.3 58.1 + - - +
160F LYS* 3.4 0.9 + - - -
161F ARG* 2.8 42.0 + - - +
166F THR* 3.6 30.6 - - + +
167F PRO* 4.6 0.7 - - + -
169F GLU* 5.4 0.7 - - - -
----------------------------------------------------------
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Residues in contact with ARG 158 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A GLU* 3.2 30.7 + - - +
116A GLN* 5.8 1.6 + - - -
46F PHE* 2.7 49.1 + - + +
47F GLN* 3.4 46.6 + - - +
151F GLY 5.5 0.4 + - - -
154F LEU* 2.8 38.8 + - - +
155F GLU* 3.6 16.7 - - - +
157F PHE* 1.3 79.3 - - - +
159F SER* 1.3 60.1 + - - +
161F ARG* 3.2 10.8 - - - +
162F LEU* 3.2 27.5 + - - +
----------------------------------------------------------
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Residues in contact with SER 159 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A GLU* 5.1 2.6 + - - -
107A HIS* 3.0 36.5 + - - -
270D LYS* 5.6 0.5 + - - -
155F GLU* 2.9 21.2 + - - +
156F ASP* 3.6 8.7 - - - -
157F PHE 3.2 0.2 - - - -
158F ARG* 1.3 73.3 - - - +
160F LYS* 1.3 71.0 + - - +
162F LEU* 3.1 21.4 + - - +
163F MET* 3.3 23.8 + - - +
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Residues in contact with LYS 160 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270D LYS* 2.8 33.5 + - - +
273D ASP* 3.1 20.5 + - - -
274D SER* 3.4 23.5 - - - +
65F HIS* 3.9 16.8 - - + -
69F GLN* 5.6 2.0 - - - -
156F ASP* 3.0 43.2 + - - +
157F PHE 3.8 2.7 - - - +
159F SER* 1.3 83.0 - - - +
161F ARG* 1.3 63.9 + - - +
163F MET* 3.1 21.3 + - + +
164F GLY 3.0 4.9 + - - -
165F MET* 2.9 38.4 + - + +
166F THR* 4.1 5.4 - - + -
----------------------------------------------------------
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Residues in contact with ARG 161 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45F GLN* 4.4 16.6 - - - +
46F PHE* 3.4 32.2 - - - +
157F PHE* 2.8 28.0 + - + +
158F ARG* 3.2 13.6 - - - +
160F LYS* 1.3 76.5 - - - +
162F LEU* 1.3 60.6 + - + +
164F GLY* 2.9 19.1 + - - -
166F THR* 3.2 29.8 + - + +
169F GLU* 2.8 36.1 + - - +
172F LEU* 4.2 4.6 - - - +
176F GLU* 3.6 19.0 + - - -
----------------------------------------------------------
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Residues in contact with LEU 162 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LYS* 5.1 18.4 - - + -
227D ARG* 4.0 25.0 + - - +
158F ARG 3.6 13.2 - - - +
159F SER* 3.1 12.5 + - - +
161F ARG* 1.3 76.9 - - + +
163F MET* 1.3 62.0 + - + +
164F GLY* 2.9 10.1 + - - -
----------------------------------------------------------
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Residues in contact with MET 163 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
227D ARG* 4.1 19.1 - - - +
230D ARG* 3.5 19.4 + - - +
267D GLU* 3.6 28.9 - - - +
270D LYS* 3.4 49.1 - - + +
271D LEU* 4.4 12.1 - - - -
159F SER* 3.3 17.0 + - - +
160F LYS* 3.1 36.2 + - + +
162F LEU* 1.3 76.0 - - + +
164F GLY* 1.3 63.8 + - - +
165F MET* 3.1 22.0 - - + +
----------------------------------------------------------
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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