Contacts of the helix formed by residues 127 - 152 (chain B) in PDB entry 2CHP
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 127 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10B GLN* 5.6 1.4 - - - +
13B VAL* 4.4 4.6 - - + +
67B ARG* 2.9 24.5 + - - -
71B ILE* 3.9 17.9 - - - +
122B ALA* 2.9 31.8 + - + +
123B GLU* 4.7 1.3 - - - +
125B ASN* 4.1 14.1 - - + +
126B GLN* 1.3 72.6 - - - +
128B ASN* 1.3 62.0 + - - +
129B ALA 3.6 1.6 + - - -
130B THR* 2.6 30.3 + - - +
131B ALA* 3.4 13.9 + - - +
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Residues in contact with ASN 128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B GLU* 5.3 9.6 - - - +
126B GLN* 3.7 15.3 + - - +
127B ASP* 1.3 73.8 - - - +
129B ALA* 1.3 58.9 + - - +
131B ALA* 3.4 7.6 + - - +
132B ASP* 3.0 29.5 + - - +
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Residues in contact with ALA 129 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B ARG* 3.4 30.7 + - - +
127B ASP* 3.3 1.4 + - - +
128B ASN* 1.3 76.4 - - - +
130B THR* 1.3 64.8 + - - +
132B ASP* 3.3 8.7 + - - +
133B LEU* 3.3 20.6 + - - +
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Residues in contact with THR 130 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B VAL* 4.1 6.1 - - + -
17B LEU* 3.7 35.4 - - + -
67B ARG* 2.8 30.2 + - + +
71B ILE* 3.9 4.0 - - - +
118B VAL* 4.6 1.1 - - + -
122B ALA* 4.1 12.6 - - + -
127B ASP* 2.6 35.0 + - - +
129B ALA* 1.3 73.8 - - - +
131B ALA* 1.3 65.1 + - - +
133B LEU* 3.3 12.7 + - - +
134B PHE* 3.4 20.3 - - + -
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Residues in contact with ALA 131 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118B VAL 5.7 0.2 - - - -
119B ILE* 3.8 29.9 - - + +
122B ALA* 3.7 14.6 - - + +
123B GLU* 4.1 13.9 - - + +
127B ASP 3.4 12.4 + - - +
128B ASN* 3.6 9.6 - - - +
129B ALA 3.4 0.2 - - - -
130B THR* 1.3 76.4 - - - +
132B ASP* 1.3 58.1 + - - +
134B PHE* 3.1 6.0 + - - +
135B VAL* 2.8 33.4 + - + +
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Residues in contact with ASP 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B ASN 3.0 18.1 + - - +
129B ALA* 3.6 8.8 - - - +
130B THR 3.2 0.2 - - - -
131B ALA* 1.3 75.1 - - - +
133B LEU* 1.3 65.8 + - - +
135B VAL* 3.5 14.3 - - - +
136B GLY* 3.1 20.3 + - - -
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Residues in contact with LEU 133 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B LEU* 5.6 0.4 - - + -
60B THR* 5.7 0.2 - - + -
63B THR* 3.9 32.5 - - + +
64B ILE* 4.2 13.0 - - + -
67B ARG* 3.6 35.4 - - + -
129B ALA 3.3 9.9 + - - +
130B THR* 3.4 8.3 - - - +
132B ASP* 1.3 79.3 + - - +
134B PHE* 1.3 74.5 + - + +
136B GLY* 3.4 2.6 + - - -
137B LEU* 3.1 47.1 + - + +
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Residues in contact with PHE 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B LEU* 3.7 37.5 - - + -
20B GLN* 4.0 29.6 - - + -
24B TRP* 5.6 0.4 - - - -
64B ILE* 4.2 17.0 - - + -
115B SER* 3.9 38.7 - - - +
118B VAL* 3.7 17.9 - - + -
119B ILE* 4.2 5.2 - - + -
130B THR* 3.4 16.6 - - + -
131B ALA* 3.1 8.4 + - - +
133B LEU* 1.3 90.3 - - + +
135B VAL* 1.3 59.7 + - - +
137B LEU* 3.3 21.9 + - + +
138B ILE* 3.0 35.4 + - - +
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Residues in contact with VAL 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B ILE* 3.5 27.8 - - + +
131B ALA* 2.8 28.5 + - + +
132B ASP* 3.5 17.0 - - - +
134B PHE* 1.3 72.1 - - - +
136B GLY* 1.3 62.6 + - - +
138B ILE* 3.4 7.2 + - - +
139B GLU* 3.2 43.8 + - + +
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Residues in contact with GLY 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B ASP 3.1 11.1 + - - -
133B LEU* 3.8 3.8 - - - -
135B VAL* 1.3 81.1 - - - +
137B LEU* 1.3 59.3 + - - +
139B GLU* 3.3 20.2 + - - +
140B GLU* 3.3 20.6 + - - +
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Residues in contact with LEU 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B TRP* 4.0 19.1 - - + +
56B HIS* 4.2 12.8 - - + +
60B THR* 3.5 45.5 - - + +
64B ILE* 4.0 8.5 - - + -
111B ILE* 6.0 0.2 - - + -
115B SER* 5.0 5.4 - - - +
133B LEU* 3.1 34.6 + - + +
134B PHE* 3.3 23.1 + - + +
136B GLY* 1.3 72.1 - - - +
138B ILE* 1.3 61.4 + - - +
140B GLU* 3.3 4.1 + - + +
141B VAL* 2.8 40.4 + - + +
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Residues in contact with ILE 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B SER* 3.8 15.3 - - - +
115B SER* 3.9 15.3 - - - -
116B LYS* 3.6 31.6 - - + +
119B ILE* 3.5 31.9 - - + -
134B PHE 3.0 16.9 + - - +
135B VAL* 3.5 8.5 - - - +
137B LEU* 1.3 74.9 - - - +
139B GLU* 1.3 66.4 + - + +
141B VAL* 4.6 4.0 - - - -
142B GLU* 3.0 49.8 + - - +
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Residues in contact with GLU 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B VAL* 3.2 31.0 + - + +
136B GLY* 3.5 16.6 - - - +
137B LEU 3.3 0.2 - - - -
138B ILE* 1.3 79.9 - - + +
140B GLU* 1.3 60.2 + - - +
142B GLU* 4.2 2.8 - - - +
143B LYS* 3.3 22.7 + - - +
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Residues in contact with GLU 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B LEU* 5.8 0.2 - - - +
56B HIS* 3.5 40.6 + - + +
136B GLY 3.3 8.3 + - - +
137B LEU* 3.3 9.0 + - + +
139B GLU* 1.3 76.3 - - - +
141B VAL* 1.3 66.5 + - - +
143B LYS* 3.3 25.2 + - - +
144B GLN* 2.9 53.8 + - + +
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Residues in contact with VAL 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B TRP* 3.6 37.9 - - + -
56B HIS* 5.0 3.4 - - + -
108B TYR* 3.5 40.5 - - + +
111B ILE* 4.4 5.4 - - + -
112B SER* 3.6 23.3 - - - +
137B LEU* 2.8 34.8 + - + +
138B ILE* 4.1 3.1 - - - +
140B GLU* 1.3 74.0 - - - +
142B GLU* 1.3 60.4 + - - +
144B GLN* 3.1 9.2 + - - +
145B VAL* 2.9 29.7 + - + +
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Residues in contact with GLU 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112B SER* 2.7 32.1 + - - +
116B LYS* 2.9 21.4 + - - -
138B ILE* 3.0 32.0 + - - +
139B GLU* 4.3 2.9 - - - +
141B VAL* 1.3 72.8 - - + +
143B LYS* 1.3 64.1 + - - +
145B VAL* 3.8 9.9 - - + +
146B TRP* 3.1 21.5 + - - +
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Residues in contact with LYS 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139B GLU 3.3 13.7 + - - +
140B GLU* 3.4 28.0 + - - +
141B VAL 3.2 0.2 - - - -
142B GLU* 1.3 76.6 - - - +
144B GLN* 1.3 74.3 + - - +
146B TRP* 3.1 17.3 + - + +
147B MET* 3.0 54.3 + - + +
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Residues in contact with GLN 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49B LYS* 2.8 36.6 + - - +
53B LEU* 3.8 19.0 - - + +
56B HIS* 5.9 2.5 - - + +
108B TYR* 4.4 20.9 - - + -
140B GLU* 2.9 43.0 + - + +
141B VAL* 3.1 8.5 + - - +
143B LYS* 1.3 91.8 - - - +
145B VAL* 1.3 57.2 + - - +
147B MET* 3.1 11.5 + - - +
148B LEU* 2.8 39.5 + - + +
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Residues in contact with VAL 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B VAL* 4.3 9.4 - - + +
108B TYR* 3.5 27.4 - - + +
109B LYS* 3.7 44.2 - - + +
112B SER* 6.1 0.2 - - - -
141B VAL* 2.9 21.2 + - + +
142B GLU* 3.8 13.5 - - + +
144B GLN* 1.3 75.5 - - - +
146B TRP* 1.3 62.1 + - - +
148B LEU* 4.2 4.6 - - - +
149B SER* 2.8 39.1 + - - +
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Residues in contact with TRP 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B GLU 3.1 12.6 + - - +
143B LYS* 3.1 19.3 + - + +
145B VAL* 1.3 77.2 - - - +
147B MET* 1.3 88.9 + - + +
149B SER* 3.9 4.5 - - - -
150B SER* 2.8 57.7 + - - -
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Residues in contact with MET 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49B LYS* 3.8 15.9 - - - +
143B LYS* 3.0 38.4 + - + +
144B GLN* 3.1 32.5 + - - +
146B TRP* 1.3 102.4 - - + +
148B LEU* 1.3 65.5 + - + +
150B SER* 3.3 6.7 + - - -
151B TYR* 3.1 21.5 + - - +
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Residues in contact with LEU 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B LEU* 5.6 3.4 - - + -
49B LYS* 4.9 15.3 - - + -
50B PHE* 5.2 2.2 - - + -
53B LEU* 4.6 11.2 - - + -
101B VAL* 3.5 33.8 - - + +
104B LEU* 3.9 27.1 - - + -
105B VAL* 3.6 19.1 - - + -
108B TYR* 3.9 32.1 - - + -
144B GLN* 2.8 26.1 + - + +
145B VAL* 4.9 0.4 - - - +
147B MET* 1.3 77.1 - - + +
149B SER* 1.3 62.6 + - - +
151B TYR* 3.4 9.6 + - + +
152B LEU* 3.4 16.5 + - - +
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Residues in contact with SER 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105B VAL* 3.9 17.7 - - - +
109B LYS* 5.0 3.3 + - - -
145B VAL* 2.8 35.4 + - - +
146B TRP* 3.9 5.4 - - - -
148B LEU* 1.3 73.0 - - - +
150B SER* 1.3 64.6 - - - +
152B LEU* 3.2 18.0 + - - +
153B GLY* 3.3 11.3 + - - -
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Residues in contact with SER 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B TRP* 2.8 50.3 + - - -
147B MET* 3.6 7.2 - - - -
148B LEU 3.3 0.2 - - - -
149B SER* 1.3 76.2 - - - +
151B TYR* 1.3 57.6 + - - +
153B GLY* 2.9 22.1 + - - +
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Residues in contact with TYR 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42B HIS* 3.3 39.8 - + + -
45B THR* 5.8 5.4 - - + -
46B LEU* 3.5 36.0 - - + +
97B ALA* 3.8 9.8 - - - +
98B SER* 4.4 10.0 + - - -
101B VAL* 4.1 21.3 - - + -
147B MET 3.1 12.6 + - - +
148B LEU* 3.4 13.9 - - + +
150B SER* 1.3 77.8 - - - +
152B LEU* 1.3 77.0 + - + +
153B GLY 3.4 4.2 + - - +
1154B PO4 5.4 0.4 - - - -
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B SER* 3.8 42.2 - - - +
101B VAL* 3.9 14.1 - - + -
102B GLN* 3.5 35.2 - - + +
105B VAL* 4.6 6.5 - - + -
148B LEU 3.4 14.1 + - - +
149B SER* 3.2 11.6 + - - +
150B SER 3.2 1.0 - - - -
151B TYR* 1.3 82.6 - - + +
153B GLY* 1.3 62.1 + - - +
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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) + - + + + + + -
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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