Contacts of the helix formed by residues 141 - 164 (chain K) in PDB entry 1F33
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 ASP 141 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133G ARG* 4.3 12.3 - - - +
21K VAL* 4.7 8.8 - - + +
25K GLU* 3.5 9.1 + - - +
29K THR* 3.8 16.5 + - - +
83K ARG* 2.7 36.0 + - - -
87K LEU* 4.2 6.9 - - + +
139K ALA* 4.4 1.2 - - - +
140K LYS* 1.3 76.8 - - - +
142K ASP* 1.3 69.5 + - - +
143K ASP* 3.9 2.6 + - - +
144K THR* 2.5 32.6 + - - +
145K ALA* 2.9 21.6 + - - +
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Residues in contact with ASP 142 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133G ARG* 4.3 9.4 - - + +
136G ILE* 3.8 41.5 - - + +
137G GLY* 4.4 9.0 + - - -
149G THR* 4.3 5.1 - - + +
140K LYS 3.3 8.9 + - - +
141K ASP* 1.3 73.5 + - - +
143K ASP* 1.3 65.8 + - - +
145K ALA* 3.0 9.8 + - - +
146K ASP* 2.9 21.8 + - - +
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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
----------------------------------------------------------
133G ARG* 3.9 4.3 - - - -
136G ILE* 3.6 6.2 - - - +
149G THR* 3.5 26.6 - - - +
152G SER* 2.6 34.9 + - - -
153G ARG* 3.8 17.2 + - - +
156G ASP* 3.3 8.3 - - - +
83K ARG* 3.3 35.1 + - - +
141K ASP* 3.3 2.5 + - - -
142K ASP* 1.3 78.4 - - - +
144K THR* 1.3 63.4 + - - +
146K ASP* 3.2 5.8 + - - +
147K ILE* 3.0 27.4 + - - +
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Residues in contact with THR 144 (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 THR* 3.1 22.3 - - + +
32K LEU* 5.1 4.0 - - + -
33K LEU* 3.5 30.1 - - + -
83K ARG* 3.7 8.2 + - - +
139K ALA* 4.3 8.1 - - + -
141K ASP* 2.5 34.0 + - - -
143K ASP* 1.3 74.1 - - - +
145K ALA* 1.3 67.7 + - - +
147K ILE* 3.2 10.8 + - - +
148K LEU* 2.9 35.9 + - + +
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Residues in contact with ALA 145 (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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136K ILE* 4.0 23.6 - - + +
139K ALA* 4.0 16.3 - - + +
141K ASP 2.9 11.7 + - - +
142K ASP* 3.3 12.1 - - - +
144K THR* 1.3 76.3 - - - +
146K ASP* 1.3 53.7 + - - +
148K LEU* 3.3 5.6 + - - +
149K THR* 2.7 38.0 + - - -
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Residues in contact with ASP 146 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G ASP* 4.5 3.5 - - - +
149G THR* 3.8 24.0 - - + +
153G ARG* 2.8 20.4 + - - +
607G TRS 2.8 47.0 + - - -
146I ASP* 4.3 5.0 - - - +
142K ASP 2.9 10.8 + - - +
143K ASP 3.3 10.1 - - - +
145K ALA* 1.3 77.1 - - - +
147K ILE* 1.3 63.5 - - - +
149K THR* 3.0 9.5 + - - -
150K ALA* 2.9 22.9 + - - +
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Residues in contact with ILE 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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153G ARG* 3.5 35.0 - - + +
33K LEU* 5.2 2.0 - - + -
76K HIS* 4.7 3.6 + - - +
79K THR* 3.8 23.3 - - + -
80K MET* 3.6 30.5 - - + -
83K ARG* 3.6 41.5 - - + -
143K ASP 3.0 18.3 + - - +
144K THR* 3.4 8.7 - - + +
146K ASP* 1.3 76.1 - - - +
148K LEU* 1.3 63.9 + - + +
150K ALA* 3.4 4.7 + - - +
151K ALA* 3.1 20.9 + - + +
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Residues in contact with LEU 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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32K LEU* 4.3 7.9 - - + -
33K LEU* 4.6 7.6 - - + -
36K GLN* 3.9 11.7 - - + -
80K MET* 3.8 27.6 - - - -
132K VAL* 3.9 20.6 - - + +
135K ALA* 3.8 34.3 - - + +
136K ILE* 3.9 12.1 - - + +
139K ALA* 4.1 7.2 - - + -
144K THR* 2.9 37.1 + - + +
145K ALA 3.7 3.6 - - - +
147K ILE* 1.3 72.3 - - - +
149K THR* 1.3 57.3 + - - +
151K ALA* 3.3 4.4 + - - +
152K SER* 2.7 35.9 + - - -
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Residues in contact with THR 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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607G TRS 6.3 0.2 - - - -
142I ASP* 4.3 4.8 - - + +
143I ASP* 3.4 22.0 - - - +
146I ASP* 3.7 35.9 - - + +
136K ILE* 3.5 24.8 - - + +
145K ALA* 2.7 24.3 + - - +
146K ASP* 3.0 11.9 + - - -
148K LEU* 1.3 74.0 - - - +
150K ALA* 1.3 61.1 + - - +
152K SER 3.2 0.3 + - - -
153K ARG* 2.8 30.7 + - - +
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Residues in contact with ALA 150 (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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153G ARG* 4.8 11.7 - - - +
607G TRS 4.6 17.0 + - - +
146I ASP* 5.4 0.7 - - - -
76K HIS* 3.4 19.0 - - + +
146K ASP 2.9 11.4 + - - +
147K ILE* 3.6 10.3 - - - +
149K THR* 1.3 78.5 - - - +
151K ALA* 1.3 63.3 + - - +
153K ARG* 3.4 8.3 - - - +
154K ASP* 3.4 15.9 + - - +
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Residues in contact with ALA 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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40K PHE* 3.9 21.8 - - + -
76K HIS* 3.4 32.9 - - + +
80K MET* 5.0 5.4 - - - -
132K VAL* 4.7 2.5 - - + -
147K ILE* 3.1 15.6 + - + +
148K LEU* 3.7 7.9 - - - +
150K ALA* 1.3 74.3 - - - +
152K SER* 1.3 65.1 + - - +
154K ASP* 3.1 4.3 + - - +
155K LEU* 2.9 28.5 + - - +
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Residues in contact with SER 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143I ASP* 2.6 32.3 + - - -
132K VAL* 4.0 20.7 - - - +
133K ARG* 3.6 20.7 - - - +
136K ILE* 3.7 9.2 - - - -
148K LEU 2.7 21.7 + - - -
151K ALA* 1.3 73.2 - - - +
153K ARG* 1.3 65.2 + - - +
155K LEU* 3.1 2.3 + - - +
156K ASP* 2.9 29.8 + - - +
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Residues in contact with ARG 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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607G TRS 4.1 9.1 + - - -
79I THR* 3.6 18.6 - - - +
83I ARG* 5.2 3.4 - - - +
86I GLN* 4.3 4.4 - - - +
143I ASP* 3.7 27.3 + - + +
146I ASP* 3.0 27.3 + - - -
147I ILE* 3.5 42.8 - - + +
150I ALA* 4.9 8.7 - - - +
149K THR 2.8 15.9 + - - +
150K ALA* 3.4 9.5 - - - +
152K SER* 1.3 78.4 + - - +
154K ASP* 1.3 63.2 + - - +
156K ASP* 3.7 4.1 + - - +
157K LYS* 3.3 18.7 + - - +
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Residues in contact with ASP 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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72K ALA* 4.3 8.3 - - - +
76K HIS* 2.7 31.6 + - + +
150K ALA 3.4 4.2 + - - -
151K ALA 3.1 8.9 + - - +
153K ARG* 1.3 79.9 - - - +
155K LEU* 1.3 61.3 + - + +
157K LYS* 3.0 12.2 + - - +
158K PHE* 2.8 56.8 + - + -
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Residues in contact with LEU 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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40K PHE* 3.3 38.1 - - + -
43K LEU* 3.8 19.7 - - + -
73K LEU* 4.2 15.0 - - + -
76K HIS* 5.4 1.1 - - + -
125K TYR* 4.2 11.5 - - + +
128K VAL* 3.6 27.1 - - + -
129K ALA* 3.9 25.2 - - + +
132K VAL* 4.8 2.0 - - + -
151K ALA* 2.9 24.9 + - - +
152K SER* 3.1 5.8 + - - +
154K ASP* 1.3 77.8 - - + +
156K ASP* 1.3 58.0 + - - +
158K PHE* 3.2 7.7 + - + +
159K LEU* 2.8 30.3 + - - +
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Residues in contact with ASP 156 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19I ASN* 3.4 16.7 + - - +
83I ARG* 2.8 40.4 + - - +
86I GLN* 3.7 9.2 - - + +
143I ASP* 3.4 5.4 - - - +
129K ALA* 3.7 11.1 - - - +
133K ARG* 2.5 34.9 + - - -
152K SER* 2.9 19.0 + - - +
153K ARG 4.0 1.1 - - - +
155K LEU* 1.3 75.9 - - - +
157K LYS* 1.3 63.2 + - - +
159K LEU* 3.7 6.7 - - - +
160K TRP* 3.1 23.9 + - - +
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Residues in contact with LYS 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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82I GLU* 4.0 21.1 + - - +
86I GLN* 3.7 24.4 + - - +
153K ARG 3.3 12.2 + - - +
154K ASP* 3.0 18.0 + - - +
156K ASP* 1.3 80.3 - - - +
158K PHE* 1.3 72.7 + - + +
160K TRP* 3.2 10.3 + - + +
161K PHE* 2.8 57.9 + - + +
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Residues in contact with PHE 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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68K GLY 5.6 0.2 - - - -
69K PHE* 3.4 54.3 - + + -
72K ALA* 3.5 33.4 - - + -
73K LEU* 4.1 14.1 - - + -
76K HIS* 5.7 0.2 - + - -
125K TYR* 3.7 24.7 - + + -
154K ASP* 2.8 43.9 + - + +
155K LEU* 3.7 7.4 - - - +
157K LYS* 1.3 89.7 - - + +
159K LEU* 1.3 60.6 + - - +
161K PHE* 3.0 2.3 + - - +
162K ILE* 2.8 35.5 + - - +
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Residues in contact with LEU 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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17I THR* 4.4 1.8 - - - +
18I ARG* 4.1 1.1 - - + -
19I ASN* 3.7 40.4 - - + +
122K ALA* 3.5 31.2 - - - +
125K TYR* 4.2 12.0 - - + -
126K ALA* 3.9 22.4 - - + +
129K ALA* 4.4 10.5 - - + -
130K ASN* 5.2 0.2 - - - +
155K LEU 2.8 20.5 + - - +
156K ASP* 3.7 5.8 - - - +
158K PHE* 1.3 73.4 - - - +
160K TRP* 1.3 59.3 + - - +
162K ILE* 3.2 4.0 + - - +
163K GLU* 2.9 56.7 + - + +
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Residues in contact with TRP 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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17I THR* 5.7 1.1 - - - +
82I GLU* 3.9 32.8 - - + -
85I VAL* 3.2 26.0 - - + +
86I GLN* 3.5 42.4 - - + +
52J TRP* 3.8 21.7 + - - -
54J MET 5.2 2.4 + - - -
55J ARG* 3.9 18.8 - - - +
59J PHE* 4.3 11.6 - + - -
63J HIS* 4.1 12.8 - + - -
156K ASP 3.1 11.0 + - - +
157K LYS* 3.3 10.8 - - + +
159K LEU* 1.3 81.6 - - - +
161K PHE* 1.3 88.3 + + - +
163K GLU* 3.8 8.2 - - - +
164K SER* 2.6 64.9 + - - -
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Residues in contact with PHE 161 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82I GLU* 5.7 0.7 - - - -
59J PHE* 3.7 19.1 - + - -
60J ILE* 3.6 20.9 - - + -
63J HIS* 3.9 23.6 - + - -
64J GLU* 5.1 3.1 - - - -
65K MET* 3.9 6.5 - - + -
69K PHE* 3.6 30.1 - + + -
157K LYS* 2.8 39.2 + - + +
158K PHE 3.0 7.6 + - - +
160K TRP* 1.3 113.5 - + - +
162K ILE* 1.3 59.5 + - - +
164K SER* 3.6 2.1 + - - -
165K ASN* 2.7 34.6 + - - -
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Residues in contact with ILE 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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65K MET* 4.4 9.9 - - + -
66K LEU* 4.8 4.9 - - + -
69K PHE* 3.7 15.3 - - + -
118K LEU* 3.3 41.0 - - + +
121K LEU* 4.1 10.1 - - + -
122K ALA* 3.9 12.3 - - + +
125K TYR* 3.5 53.8 - - + -
158K PHE 2.8 20.7 + - - +
159K LEU* 3.6 4.3 - - - +
161K PHE* 1.3 71.2 - - - +
163K GLU* 1.3 66.7 + - - +
165K ASN* 3.0 18.2 + - - +
166K ILE* 3.6 7.2 + - + +
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Residues in contact with GLU 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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16I TYR* 4.2 3.5 - - - +
17I THR* 2.8 30.1 + - - -
18I ARG* 2.7 62.5 + - - +
55J ARG* 4.6 13.0 + - - +
122K ALA* 4.3 4.3 - - + -
159K LEU* 2.9 31.3 + - + +
160K TRP* 3.9 6.9 - - - +
162K ILE* 1.3 75.5 - - - +
164K SER* 1.3 58.2 + - - +
166K ILE* 2.8 37.3 + - + +
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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
----------------------------------------------------------
54J MET 4.4 0.2 + - - -
55J ARG* 3.6 22.4 + - - +
56J GLY 2.8 26.4 + - - -
59J PHE* 3.2 40.8 - - - +
160K TRP* 2.6 46.7 + - - -
161K PHE 3.9 0.7 - - - -
162K ILE 3.2 0.2 - - - -
163K GLU* 1.3 74.8 - - - +
165K ASN* 1.3 56.4 + - - +
166K ILE 3.4 0.7 - - - -
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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