Contacts of the helix formed by residues 129 - 154 (chain B) in PDB entry 3EHN
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 SER 129 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B LEU* 5.6 0.9 - - - +
127B SER* 3.3 3.4 + - - +
128B ASP* 1.3 76.0 - - - +
130B PRO* 1.3 65.6 - - - +
131B SER* 3.7 11.3 + - - -
132B GLU* 3.3 37.3 + - - +
133B GLN* 3.0 28.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 130 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B ASP 3.1 8.9 - - - +
129B SER* 1.3 82.9 - - - +
131B SER* 1.3 67.7 + - - +
133B GLN* 3.0 21.7 + - + +
134B ALA 3.2 9.4 + - - -
191B LEU* 6.2 0.4 - - + -
195B ILE* 3.7 22.9 - - + +
197B TYR* 3.8 9.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 131 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B LEU* 4.5 17.3 - - - -
129B SER* 3.3 9.1 - - - -
130B PRO* 1.3 82.5 - - - +
132B GLU* 1.3 57.8 - - - +
134B ALA* 3.5 7.5 + - - +
135B ILE* 3.3 27.7 + - - +
197B TYR* 2.7 37.1 + - - -
199B VAL* 4.6 5.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 132 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B LEU* 3.1 38.9 - - + +
38B LYS* 3.8 15.7 + - - -
39B TYR* 3.5 27.4 + - + +
124B ALA* 3.8 8.8 - - + +
127B SER* 2.8 30.9 + - - +
129B SER* 3.3 23.4 + - - +
130B PRO 3.2 0.2 - - - -
131B SER* 1.3 73.9 - - - +
133B GLN* 1.3 66.6 + - - +
134B ALA 3.2 1.6 - - - -
135B ILE* 3.9 9.2 - - + -
136B LEU* 3.2 23.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 133 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124B ALA 4.1 13.7 + - - -
125B LYS 4.5 4.6 + - - -
127B SER* 2.7 29.0 + - - +
128B ASP 4.6 2.7 - - - +
129B SER 3.0 21.1 + - - +
130B PRO* 3.0 16.5 + - + +
132B GLU* 1.3 81.0 + - - +
134B ALA* 1.3 60.0 + - - +
136B LEU* 4.2 4.3 - - - +
137B GLU* 3.0 31.9 + - - +
191B LEU* 3.5 31.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 134 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B PRO 3.2 9.6 + - - +
131B SER* 3.5 9.6 - - - +
133B GLN* 1.3 75.5 - - - +
135B ILE* 1.3 54.2 + - - +
137B GLU* 2.6 11.5 + - - +
138B ILE* 2.6 38.7 + - + +
191B LEU* 3.9 3.1 - - - +
192B LEU* 3.8 23.3 - - + -
195B ILE* 4.2 13.2 - - + -
199B VAL* 4.3 19.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 135 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B LEU* 4.5 16.4 - - + -
39B TYR* 3.7 47.3 - - + -
43B PHE* 5.8 1.1 - - + -
120B ILE* 4.3 5.6 - - + -
131B SER 3.3 14.3 + - - +
132B GLU* 3.9 11.2 - - - +
134B ALA* 1.3 78.7 - - - +
136B LEU* 1.3 61.3 + - - +
138B ILE* 3.2 5.6 + - - +
139B ALA* 2.9 29.7 + - + +
199B VAL* 3.8 14.8 - - + +
200B MET* 3.4 45.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 136 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B TRP* 4.6 5.6 - - - +
120B ILE* 3.9 13.5 - - + +
121B TYR* 3.6 44.2 - - + +
124B ALA* 3.6 18.6 - - + +
125B LYS* 3.5 35.0 - - - +
132B GLU 3.2 8.3 + - - +
133B GLN* 4.6 4.5 - - - +
135B ILE* 1.3 82.4 - - - +
137B GLU* 1.3 53.0 + - - +
139B ALA* 3.8 3.3 + - + -
140B ASN* 2.5 48.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 137 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B GLN 3.0 24.7 + - - +
134B ALA* 2.6 16.7 + - - +
136B LEU* 1.3 71.1 - - - +
138B ILE* 1.3 56.9 + - - +
140B ASN* 3.0 33.6 + - - +
141B ILE* 3.3 10.6 + - - +
187B LYS* 3.9 28.6 - - - +
188B SER* 2.4 37.8 + - - -
191B LEU* 3.5 28.3 - - + +
192B LEU* 4.1 14.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 138 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B PHE* 3.9 15.0 - - + -
134B ALA* 2.6 23.5 + - + +
135B ILE* 3.8 4.7 - - - +
137B GLU* 1.3 67.2 - - - +
139B ALA* 1.3 57.3 + - - +
140B ASN 2.9 5.2 - - - -
141B ILE* 3.0 24.5 + - - +
142B VAL* 3.2 12.1 + - - +
192B LEU* 3.9 27.8 - - + -
199B VAL* 4.9 13.7 - - + +
209B GLY 5.9 0.2 - - - +
211B VAL* 4.8 10.5 - - + -
214B TRP* 3.7 60.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 139 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B PHE* 4.6 11.9 - - + -
46B MET* 3.3 13.6 - - - +
117B TRP* 3.2 11.9 - - + -
120B ILE* 3.9 37.7 - - + -
135B ILE* 2.9 17.8 + - + +
136B LEU* 4.0 5.2 - - + +
138B ILE* 1.3 77.6 - - - +
140B ASN* 1.3 56.7 + - - +
142B VAL* 4.7 1.3 - - - -
143B ARG* 3.0 23.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 140 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B TRP* 2.8 34.0 + - - -
121B TYR* 6.0 0.2 - - - -
136B LEU* 2.5 35.0 + - - +
137B GLU* 3.0 27.8 + - - +
138B ILE 2.9 0.6 - - - -
139B ALA* 1.3 80.7 - - - +
141B ILE* 1.3 51.3 + - - +
142B VAL 3.3 0.2 - - - -
143B ARG* 3.2 13.0 + - - +
144B ASN* 2.5 51.9 + - - +
184B ASP* 5.9 3.6 - - + +
188B SER* 4.5 4.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 141 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B GLU 3.8 9.4 - - - +
138B ILE* 3.0 8.6 + - - +
140B ASN* 1.3 78.0 - - - +
142B VAL* 1.3 57.4 + - - +
144B ASN* 3.0 8.8 + - - +
145B ILE* 2.8 47.2 + - + +
185B LEU* 4.8 6.7 - - + -
188B SER* 4.4 11.0 - - - -
192B LEU* 4.2 20.4 - - + -
214B TRP* 3.7 32.3 - - + +
217B LEU* 4.6 4.5 - - + -
218B ALA* 3.4 39.9 - - + -
221B LEU* 4.5 5.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 142 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B PHE* 4.1 14.4 - - + -
46B MET* 3.8 28.3 - - + +
47B GLN* 4.2 4.9 - - + +
50B VAL* 3.6 24.5 - - + +
113B ILE* 4.3 2.2 - - + -
138B ILE 3.2 12.7 + - - +
139B ALA* 4.4 4.9 - - - +
141B ILE* 1.3 76.0 - - - +
143B ARG* 1.3 63.3 + - - +
145B ILE* 3.2 9.8 + - - +
146B ALA* 3.1 23.6 + - - +
214B TRP* 3.5 33.7 - - + -
355B TRP* 4.2 6.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 143 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B MET* 3.6 10.1 - - + -
113B ILE* 4.2 9.0 - - + -
117B TRP* 3.5 44.8 - - + +
139B ALA 3.0 20.4 + - - +
140B ASN* 3.2 13.8 + - - +
141B ILE 3.2 0.4 - - - -
142B VAL* 1.3 80.3 - - - +
144B ASN* 1.3 81.9 + - - +
146B ALA* 4.0 0.3 - - - +
147B TRP* 3.0 69.5 + - + +
159B TYR* 3.4 33.2 + - - -
162B ALA* 3.6 8.1 - - - +
184B ASP* 4.0 11.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 144 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B ASN* 2.5 35.8 + - - +
141B ILE* 3.0 8.9 + - - +
143B ARG* 1.3 94.5 + - - +
145B ILE* 1.3 60.3 + - - +
146B ALA 3.0 1.6 - - - -
147B TRP* 3.7 2.6 - - - +
148B LEU* 2.8 32.9 + - - +
159B TYR* 2.7 34.5 + - - -
181B MET* 3.9 17.0 - - + +
184B ASP* 4.6 10.5 - - - +
185B LEU* 4.8 10.3 - - + +
188B SER* 5.5 0.8 + - - -
221B LEU* 4.7 8.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 145 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B VAL* 3.5 22.4 - - + -
141B ILE* 2.8 23.9 + - + +
142B VAL* 3.7 4.9 - - - +
144B ASN* 1.3 76.7 - - - +
146B ALA* 1.3 60.7 + - - +
148B LEU* 3.8 8.7 + - - +
149B ARG* 3.7 18.4 + - - +
217B LEU* 3.7 31.6 - - + -
221B LEU* 3.2 29.6 - - + -
224B ARG* 5.3 10.5 - - - +
355B TRP* 3.7 38.4 - - + +
356B PHE* 6.3 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 146 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B ARG 4.9 0.9 - - - +
50B VAL* 3.9 21.3 - - - +
109B PHE 3.3 15.5 - - - +
113B ILE* 3.3 42.0 - - + -
142B VAL 3.1 8.5 + - - +
143B ARG 4.0 1.8 - - - +
144B ASN 3.0 0.2 - - - -
145B ILE* 1.3 76.2 - - - +
147B TRP* 1.3 61.4 + - - +
148B LEU 3.2 5.6 + - - -
149B ARG* 3.4 19.3 + - - +
150B ALA 3.5 4.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 147 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B PHE 3.7 14.1 - - - -
110B TYR* 3.1 54.9 + + - -
113B ILE* 3.3 23.0 - - + +
114B PHE* 3.5 39.5 - + + -
117B TRP* 4.7 3.4 - + - -
143B ARG* 3.0 63.8 + - + +
144B ASN* 3.3 5.1 + - - +
146B ALA* 1.3 73.9 - - - +
148B LEU* 1.3 62.1 + - - +
150B ALA* 3.5 4.6 - - - +
151B THR* 3.3 17.5 + - - +
157B ILE* 3.4 16.3 - - + +
158B ALA 4.2 2.7 - - - -
159B TYR* 3.8 16.4 - + + -
162B ALA* 3.5 15.5 - - + -
181B MET* 4.1 8.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B ASN 2.8 17.3 + - - +
145B ILE 3.9 6.1 - - - +
146B ALA 3.2 0.4 - - - -
147B TRP* 1.3 75.7 - - - +
149B ARG* 1.3 65.0 + - - +
150B ALA 3.2 0.4 - - - -
151B THR* 2.8 34.5 - - + +
152B ASP* 2.9 30.4 + - - +
178B TYR* 3.7 20.4 - - + +
181B MET* 4.1 14.4 - - - -
221B LEU* 3.6 30.3 - - + -
224B ARG* 4.8 8.5 - - + +
225B ILE* 4.1 18.6 - - + -
228B ARG* 4.7 9.2 - - - +
465B GLU* 5.7 0.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B VAL* 3.1 31.2 + - - -
51B ILE* 3.6 23.9 - - - +
52B PRO* 3.9 17.4 - - - +
69B THR* 3.9 10.9 + - - +
70B ASP* 3.6 8.5 + - - -
108B ASN 4.3 2.8 + - - -
109B PHE* 3.4 36.1 - - + +
145B ILE* 3.7 18.3 + - - +
146B ALA* 3.4 10.6 + - - +
148B LEU* 1.3 79.9 - - + +
150B ALA* 1.3 63.0 + - - +
152B ASP* 3.2 5.0 + - - +
153B VAL* 3.0 29.6 + - - +
462B ASN* 5.3 3.0 + - - +
464B VAL* 3.3 42.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B PHE* 3.9 35.8 - - + +
110B TYR* 4.4 9.0 - - + -
146B ALA 3.5 2.4 + - - -
147B TRP* 3.5 14.8 - - - +
148B LEU 3.2 0.2 - - - -
149B ARG* 1.3 78.8 - - - +
151B THR* 1.3 57.8 + - - +
153B VAL* 3.1 3.5 + - - +
154B PHE* 2.9 35.1 + - + +
155B GLY 3.7 1.0 + - - -
157B ILE* 4.0 18.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B TRP 3.3 8.8 + - - +
148B LEU* 2.8 45.1 - - + +
150B ALA* 1.3 79.3 - - - +
152B ASP* 1.3 57.4 + - - +
153B VAL 3.1 0.2 - - - -
155B GLY* 2.7 42.4 + - - -
157B ILE* 4.0 4.9 - - - +
174B GLN* 2.8 39.8 + - - +
177B VAL* 4.1 19.7 - - + +
178B TYR* 3.8 12.1 - - + -
181B MET* 5.0 1.1 - - + -
533B LEU* 4.0 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 152 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B LEU* 2.9 33.0 + - - +
149B ARG* 3.2 8.6 + - - +
151B THR* 1.3 74.3 - - - +
153B VAL* 1.3 54.2 + - - +
178B TYR* 2.5 25.0 + - - -
228B ARG* 3.1 27.2 + - - -
464B VAL* 4.9 2.7 - - + -
465B GLU* 5.4 0.3 - - - +
468B THR* 3.5 19.2 + - + +
471B ARG* 2.6 41.1 + - - -
533B LEU* 3.7 3.0 - - - +
535B TRP* 2.9 17.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 153 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B PHE* 3.6 27.6 - - + -
149B ARG 3.0 22.4 + - - +
150B ALA* 3.6 3.1 - - - +
152B ASP* 1.3 82.9 - - - +
154B PHE* 1.3 77.9 + - + +
464B VAL* 4.2 11.4 - - + -
467B TRP* 4.2 12.6 - - + -
471B ARG* 4.3 3.0 + - - +
502B ARG* 3.1 28.8 - - - +
503B PHE* 3.1 45.3 + - + +
533B LEU* 4.6 0.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 154 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102B MET* 4.4 7.0 - - - -
105B ALA* 3.8 13.2 - - + -
106B TYR* 3.6 35.7 - + + -
109B PHE* 4.1 19.7 - + + -
110B TYR* 6.3 0.7 - - + -
150B ALA* 2.9 20.6 + - + +
153B VAL* 1.3 93.3 - - + +
155B GLY* 1.3 59.5 + - - +
156B PRO* 3.0 13.8 - - - +
157B ILE* 4.7 4.3 - - + -
502B ARG* 3.0 26.6 + - - -
503B PHE* 3.9 24.2 - - + -
504B ARG 4.0 13.0 - - - -
505B PHE* 3.2 48.5 - + + -
533B LEU* 4.3 1.1 - - - -
----------------------------------------------------------
Back to top of page
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