Contacts of the helix formed by residues 132 - 157 (chain B) in PDB entry 1Z09
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 132 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130B MET 3.4 1.8 - - - -
131B ASP* 1.3 83.9 - - - +
133B PRO* 1.3 79.4 - - + +
134B THR 3.2 2.3 - - - +
135B THR* 3.1 27.2 + - - -
136B THR* 3.4 11.1 + - - -
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Residues in contact with PRO 133 (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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131B ASP* 3.9 8.5 - - + -
132B ASN* 1.3 99.6 - - + +
134B THR* 1.3 68.4 + - - +
136B THR* 3.5 3.9 + - - +
137B GLN* 3.0 43.1 + - + +
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Residues in contact with THR 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B GLN 5.8 0.2 - - - +
130B MET* 3.3 36.3 - - + -
131B ASP* 5.2 6.3 + - - +
132B ASN 3.2 1.5 - - - -
133B PRO* 1.3 85.0 - - - +
135B THR* 1.3 64.4 + - - +
137B GLN* 4.4 7.6 + - - -
138B TYR* 3.0 46.6 + - + +
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Residues in contact with THR 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ILE* 3.8 5.4 - - + +
125B PRO* 3.7 24.7 - - + -
128B SER* 3.4 33.1 + - - +
130B MET* 2.9 31.8 - - - +
132B ASN* 3.1 21.3 + - - -
134B THR* 1.3 77.8 - - - +
136B THR* 1.3 54.0 + - - +
139B ALA* 2.7 39.2 + - - +
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Residues in contact with THR 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B PRO* 5.3 6.0 - - + +
132B ASN* 3.4 10.9 + - - -
133B PRO* 4.2 5.2 - - - -
135B THR* 1.3 78.2 - - - +
137B GLN* 1.3 70.2 + - + +
139B ALA* 4.0 6.3 - - - -
140B SER* 2.9 43.4 + - - +
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Residues in contact with GLN 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ILE* 5.4 0.3 - - - +
133B PRO* 3.0 36.3 + - + +
134B THR* 3.9 5.1 + - - +
136B THR* 1.3 79.4 - - + +
138B TYR* 1.3 71.9 + - + +
140B SER* 4.7 1.4 - - - -
141B LEU* 3.1 27.2 + - - +
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Residues in contact with TYR 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ILE* 3.1 46.4 - - + +
61A ASP* 4.9 5.2 + - - +
64A ASN* 5.7 0.9 + - - -
117B ILE* 3.8 12.6 - - + -
130B MET* 4.5 15.0 - - + -
134B THR* 3.0 31.6 + - + +
137B GLN* 1.3 91.8 - - + +
139B ALA* 1.3 57.2 + - - +
141B LEU* 4.3 2.9 - - - -
142B MET* 2.5 51.0 + - + +
172B ASN* 5.2 13.3 + - - -
185B ILE* 4.6 0.4 - - + -
187B ILE* 5.0 14.8 - - + -
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Residues in contact with ALA 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B ILE* 4.0 13.8 - - + +
119B VAL* 4.6 5.5 - - + +
123B GLY 4.9 2.5 - - - +
125B PRO* 4.0 25.8 - - + -
135B THR 2.7 28.9 + - - +
136B THR* 4.0 2.5 - - - -
138B TYR* 1.3 73.4 - - - +
140B SER* 1.3 54.8 + - - +
143B HIS* 2.6 39.5 + - - +
185B ILE* 4.1 12.7 - - - +
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Residues in contact with SER 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B GLY 5.7 1.3 - - - -
136B THR* 2.9 37.4 + - - +
137B GLN* 4.7 1.1 - - - -
139B ALA* 1.3 74.7 - - - +
141B LEU* 1.3 62.8 + - - +
143B HIS* 3.7 6.3 + - - +
144B SER* 3.1 25.8 + - - -
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Residues in contact with LEU 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A THR* 3.6 27.0 - - + +
59A ASP* 3.5 29.6 - - + +
60A ILE* 3.3 44.0 - - + +
137B GLN 3.1 20.7 + - - +
138B TYR* 3.1 3.1 + - - +
140B SER* 1.3 83.3 - - - +
142B MET* 1.3 69.7 + - + +
144B SER* 3.7 5.2 + - - -
145B PHE* 3.4 17.0 + - - +
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Residues in contact with MET 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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56A THR* 5.4 2.9 - - + -
60A ILE* 5.3 3.6 - - + -
138B TYR* 2.5 34.8 + - + +
141B LEU* 1.3 81.0 - - + +
143B HIS* 1.3 65.8 + - - +
145B PHE* 3.0 27.7 + - + +
146B ILE* 2.8 33.9 + - + +
167B ILE* 4.8 4.0 - - + -
174B ILE* 4.2 24.7 - - + -
176B VAL* 5.2 5.2 - - + -
185B ILE* 2.9 52.5 - - + -
187B ILE* 5.8 0.4 - - - -
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Residues in contact with HIS 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B VAL* 5.2 1.6 - - + -
121B THR 5.0 3.8 + - - -
122B GLU 4.7 2.4 - - - -
123B GLY* 3.3 40.4 + - - +
139B ALA 2.6 25.6 + - - +
140B SER* 3.7 6.9 + - - +
142B MET* 1.3 74.7 - - - +
144B SER* 1.3 70.2 + - - +
146B ILE* 3.1 16.7 + - - +
147B LEU* 3.3 44.8 + - + +
183B PHE* 3.5 27.5 - + + -
185B ILE* 4.8 0.8 - - - +
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Residues in contact with SER 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B SER 3.1 12.9 + - - -
141B LEU* 3.8 9.0 - - - -
142B MET 3.3 0.4 - - - -
143B HIS* 1.3 85.2 + - - +
145B PHE* 1.3 63.2 + - - +
147B LEU* 3.4 14.4 + - - +
148B LYS* 3.2 27.9 + - - +
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Residues in contact with PHE 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A PHE* 4.5 22.9 - + - -
52A LYS* 4.6 4.5 - - + -
53A ALA* 4.2 26.7 - - + -
56A THR* 3.8 31.2 - - + +
69A LEU* 5.6 1.8 - - + -
141B LEU 3.4 9.6 + - - +
142B MET* 3.0 23.6 + - + +
144B SER* 1.3 80.5 - - - +
146B ILE* 1.3 71.5 + - + +
148B LYS* 2.9 36.1 + - + +
149B ALA* 3.6 3.1 + - + -
165B LEU* 3.9 20.4 - - + -
167B ILE* 3.2 34.3 - - + -
176B VAL* 5.7 0.7 - - + -
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Residues in contact with ILE 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B MET* 2.8 33.5 + - + +
143B HIS* 3.6 8.5 - - - +
145B PHE* 1.3 80.3 - - + +
147B LEU* 1.3 71.9 + - + +
149B ALA* 3.0 23.0 + - - +
150B ARG* 3.6 4.5 + - - +
162B LEU* 5.0 3.5 - - + +
165B LEU* 5.8 1.8 - - + -
176B VAL* 3.0 48.5 - - + -
178B PRO* 4.7 22.0 - - + -
183B PHE* 4.2 21.1 - - + -
185B ILE* 4.0 10.5 - - + -
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Residues in contact with LEU 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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143B HIS* 3.5 47.3 - - + +
144B SER* 3.7 9.6 - - - +
145B PHE 3.3 0.6 - - - -
146B ILE* 1.3 82.1 - - + +
148B LYS* 1.3 58.4 + - + +
150B ARG* 3.4 15.3 + - + +
151B SER* 2.8 32.6 + - - -
183B PHE* 5.8 5.2 - - + -
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Residues in contact with LYS 148 (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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49A PHE* 4.6 8.7 - - + -
52A LYS* 3.9 43.1 - - + +
56A THR* 4.6 9.3 + - - -
144B SER* 3.2 26.7 - - - +
145B PHE* 2.9 26.7 + - + +
147B LEU* 1.3 77.9 - - + +
149B ALA* 1.3 52.2 + - - +
151B SER* 4.0 5.8 - - - -
152B THR* 2.5 46.5 + - - +
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Residues in contact with ALA 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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49A PHE* 4.2 18.2 - - + -
71A ILE* 5.1 2.9 - - + -
145B PHE* 3.6 3.9 + - + +
146B ILE* 3.0 13.3 + - - +
148B LYS* 1.3 78.2 - - - +
150B ARG* 1.3 55.4 + - - +
152B THR* 4.3 0.4 - - - -
153B VAL* 2.5 45.4 + - + +
162B LEU* 3.5 28.9 - - + -
165B LEU* 4.7 13.0 - - + -
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Residues in contact with ARG 150 (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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146B ILE 3.6 4.3 + - - +
147B LEU* 3.4 17.4 + - + +
149B ALA* 1.3 78.9 - - - +
151B SER* 1.3 63.7 + - - +
153B VAL* 3.5 8.8 - - + +
154B ARG* 2.9 39.9 + - + +
162B LEU* 4.4 12.2 - - + +
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Residues in contact with SER 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B LEU* 2.8 24.2 + - - -
148B LYS* 3.4 7.4 - - - -
150B ARG* 1.3 74.7 - - - +
152B THR* 1.3 65.3 + - - +
154B ARG* 3.7 4.3 - - - +
155B ASP* 2.9 24.3 + - - +
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Residues in contact with THR 152 (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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45A LEU* 3.6 25.3 - - + +
46A MET* 5.4 3.8 - - + -
49A PHE* 3.7 32.4 - - + +
52A LYS* 4.7 8.0 + - - -
71A ILE* 6.1 1.3 - - + -
148B LYS* 2.5 32.1 + - - +
149B ALA* 3.6 2.7 - - - -
151B SER* 1.3 73.1 - - - +
153B VAL* 1.3 67.4 + - + +
155B ASP* 3.2 22.2 + - - +
156B ILE* 3.6 10.9 + - + +
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Residues in contact with VAL 153 (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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49A PHE* 6.4 0.2 - - + -
71A ILE* 4.6 10.3 - - + -
72A ARG 5.5 0.2 - - - +
73A SER* 6.2 0.4 - - - -
78A ILE* 5.1 9.6 - - + -
149B ALA* 2.5 39.1 + - - +
150B ARG* 3.5 5.8 - - + +
152B THR* 1.3 76.9 - - + +
154B ARG* 1.3 65.0 + - + +
156B ILE* 3.5 13.8 + - - +
157B ASP 3.7 11.1 + - - +
160B ASN* 3.4 25.9 - - - +
161B ASP* 3.5 25.8 - - - -
162B LEU* 3.6 24.2 - - + +
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Residues in contact with ARG 154 (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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150B ARG* 2.9 33.6 + - + +
151B SER* 3.8 4.0 - - - +
153B VAL* 1.3 74.3 - - + +
155B ASP* 1.3 68.3 + - - +
156B ILE 3.2 0.7 + - - -
157B ASP* 3.4 18.2 + - - -
158B PRO* 4.3 19.2 - - + +
160B ASN 5.4 1.3 - - - -
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Residues in contact with ASP 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 3.4 21.4 - - + +
151B SER 2.9 14.1 + - - +
152B THR* 3.2 16.7 + - - +
154B ARG* 1.3 78.5 - - - +
156B ILE* 1.3 63.1 + - - +
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Residues in contact with ILE 156 (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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41A GLN 5.5 0.2 - - - +
42A TYR* 3.1 59.0 - - + +
45A LEU* 3.4 42.4 - - + -
46A MET* 5.3 5.2 - - + -
78A ILE* 6.4 1.6 - - + -
152B THR* 3.9 6.7 - - + +
153B VAL* 3.5 8.0 + - - +
154B ARG 3.2 0.6 - - - -
155B ASP* 1.3 81.3 - - - +
157B ASP* 1.3 75.5 + - + +
160B ASN* 5.0 4.5 - - - +
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Residues in contact with ASP 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A TYR* 4.9 4.3 + - - +
153B VAL 3.7 7.1 + - - +
154B ARG* 3.4 9.1 + - - +
156B ILE* 1.3 93.7 - - + +
158B PRO* 1.3 76.8 - - + +
159B GLN* 4.1 26.9 + - + +
160B ASN* 2.8 34.9 + - - +
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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