Contacts of the helix formed by residues 129 - 150 (chain B) in PDB entry 3FWQ
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 THR 129 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B THR* 5.8 2.7 - - + -
128B LEU* 1.3 78.7 - - - +
130B ASP* 1.3 65.3 + - - +
131B TYR* 3.5 9.8 + - - +
132B ASP* 2.9 41.7 + - - +
133B ILE* 3.1 10.7 + - - +
291B HIS* 5.3 4.9 - - + -
292B LEU* 4.0 2.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 130 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B THR* 1.3 72.2 - - - +
131B TYR* 1.3 62.9 + - - +
133B ILE* 3.5 4.8 + - - +
134B ARG* 2.8 62.2 + - - +
291B HIS* 3.2 30.9 - - + +
292B LEU* 3.5 28.8 - - + +
294B SER* 5.2 3.1 + - - -
323B TYR* 4.8 3.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 131 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129B THR* 3.1 9.8 + - - +
130B ASP* 1.3 78.4 - - - +
132B ASP* 1.3 61.8 + - - +
134B ARG* 3.5 10.8 + - - +
135B PHE* 3.0 23.9 + - - +
169B ARG* 3.7 16.4 - - - -
326B THR* 5.1 9.4 + - + -
327B VAL* 3.8 29.0 + - + +
329B LYS 4.9 0.3 - - - -
330B ASP* 2.8 46.7 + - - +
331B GLN 4.7 0.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 132 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B THR* 3.8 20.0 - - - +
128B LEU* 4.0 13.9 - - + -
129B THR* 2.9 38.9 + - - +
131B TYR* 1.3 78.6 - - - +
133B ILE* 1.3 60.3 + - - +
135B PHE* 4.6 2.9 - - - -
136B TYR* 2.9 46.8 + - + -
166B HIS* 5.6 3.0 + - - -
169B ARG* 3.0 26.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 133 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B PHE* 5.7 0.2 - - - -
128B LEU* 4.0 26.2 - - + +
129B THR 3.1 8.5 + - - +
130B ASP* 3.9 6.3 - - - +
132B ASP* 1.3 74.8 - - - +
134B ARG* 1.3 57.9 + - - +
136B TYR* 4.2 1.9 - - - +
137B MET* 2.9 35.6 + - + +
222B LEU* 4.0 12.1 - - + -
225B MET* 3.8 54.8 - - + +
226B ILE* 4.2 9.2 - - + +
292B LEU* 3.8 30.5 - - + -
323B TYR* 3.5 16.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 134 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130B ASP* 2.8 41.5 + - - +
131B TYR* 3.6 11.9 - - - +
133B ILE* 1.3 79.0 - - - +
135B PHE* 1.3 63.2 + - - +
138B TYR* 3.3 3.8 + - - +
292B LEU 5.6 0.2 + - - -
294B SER* 3.3 17.4 + - - -
296B GLU* 2.7 37.0 + - - +
322B PRO 4.7 1.4 + - - -
323B TYR* 2.7 67.9 + - + +
324B PHE* 3.2 24.8 - - - -
326B THR* 6.2 0.4 - - - +
327B VAL* 4.2 20.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 135 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B TYR* 3.0 19.2 + - + +
132B ASP* 3.8 2.7 - - - +
134B ARG* 1.3 76.2 - - - +
136B TYR* 1.3 86.0 + + - +
138B TYR* 3.4 6.4 + - + +
139B GLU* 3.3 47.0 + - + +
169B ARG* 3.6 56.1 - - + +
327B VAL* 3.5 19.3 - - + +
330B ASP* 3.5 42.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 136 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B PHE* 3.8 31.2 - + + -
127B THR 5.9 1.6 - - - -
128B LEU* 4.8 5.2 - - + -
132B ASP* 2.9 34.8 + - + +
133B ILE 4.2 0.4 - - - +
135B PHE* 1.3 100.3 - + - +
137B MET* 1.3 65.9 + - - +
139B GLU* 3.6 1.7 + - + -
140B ILE* 3.2 22.5 + - - +
164B ILE* 3.6 34.2 - - + +
165B ASP 3.7 2.1 + - - -
166B HIS* 4.1 11.1 - + - -
169B ARG* 3.5 45.3 - - - -
170B LYS 4.7 0.4 - - - -
171B LEU* 3.4 33.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 137 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B PHE* 5.2 0.4 - - - -
133B ILE* 2.9 29.4 + - + +
134B ARG 4.3 0.2 - - - -
135B PHE 3.4 0.2 - - - -
136B TYR* 1.3 77.9 - - - +
138B TYR* 1.3 55.3 + - - +
140B ILE* 3.3 9.4 + - - +
141B LEU* 2.8 30.1 + - - +
218B LEU* 3.7 40.8 - - + +
221B MET* 5.1 3.1 - - - -
222B LEU* 3.9 33.0 - - + -
225B MET* 4.0 20.6 - - + -
300B PHE* 3.6 29.4 - - + -
304B LEU* 4.5 0.9 - - + -
323B TYR* 4.5 2.2 - - + -
324B PHE* 3.5 19.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 138 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316A ARG* 4.3 16.5 + - - -
134B ARG 3.3 3.7 + - - +
135B PHE* 3.6 11.2 - - - +
136B TYR 3.3 0.6 - - - -
137B MET* 1.3 75.3 - - - +
139B GLU* 1.3 59.1 + - + +
141B LEU* 3.1 5.8 + - + +
142B LYS* 2.8 63.5 + - - +
316B ARG* 4.6 4.2 + - - -
319B MET* 3.4 59.2 + - + +
324B PHE* 3.5 33.8 - + + -
327B VAL* 4.8 4.0 - - + -
328B VAL* 3.5 32.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 139 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B ASN* 2.5 53.3 + - - +
135B PHE* 3.3 46.9 + - + +
136B TYR* 3.8 6.7 - - + +
137B MET 3.4 0.2 - - - -
138B TYR* 1.3 78.4 - - - +
140B ILE* 1.3 61.8 + - - +
142B LYS* 3.2 28.4 + - - +
143B ALA* 3.3 12.0 + - - +
169B ARG 5.4 3.3 - - - +
170B LYS* 5.9 0.9 - - - -
171B LEU* 3.7 29.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 140 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B PHE* 3.8 22.2 - - + -
136B TYR 3.2 17.1 + - - +
137B MET* 3.4 10.8 - - - +
139B GLU* 1.3 77.1 - - - +
141B LEU* 1.3 58.2 + - - +
143B ALA* 3.0 7.8 + - - +
144B LEU* 2.9 37.8 + - + +
157B VAL* 5.2 4.0 - - + -
162B VAL* 4.1 17.3 - - + -
171B LEU* 3.6 24.0 - - + -
173B LEU* 5.4 5.8 - - + -
218B LEU* 3.6 24.7 - - + -
221B MET* 3.8 24.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 141 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B MET* 2.8 13.2 + - + +
138B TYR* 3.1 9.4 + - - +
140B ILE* 1.3 77.4 - - - +
142B LYS* 1.3 56.3 + - - +
144B LEU* 3.8 5.0 - - + +
145B ASP* 2.9 32.4 + - - +
215B MET* 3.9 3.6 - - + -
218B LEU* 3.5 27.1 - - + -
300B PHE* 4.3 3.1 - - + -
315B ALA* 3.8 22.3 - - + +
318B ALA* 3.6 28.3 - - + -
319B MET* 3.8 22.2 - - + +
324B PHE* 3.5 40.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 142 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316A ARG* 5.4 8.3 - - - +
92B PRO* 3.9 20.7 - - + +
93B ASN* 3.8 17.7 - - - +
138B TYR* 2.8 44.9 + - + +
139B GLU* 3.2 29.0 + - - +
141B LEU* 1.3 72.0 - - - +
143B ALA* 1.3 58.0 + - - +
145B ASP* 3.9 2.2 - - - +
146B TYR* 3.1 30.1 + - - +
319B MET* 4.0 23.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 143 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B PRO 3.5 13.0 + - - +
93B ASN* 3.6 24.2 - - + +
94B ILE* 3.8 14.1 - - + +
139B GLU 3.3 7.9 + - - +
140B ILE* 3.0 11.8 + - - +
142B LYS* 1.3 76.9 - - - +
144B LEU* 1.3 65.4 + - - +
146B TYR 3.6 0.2 + - - -
147B CYS* 3.2 25.6 + - - +
171B LEU* 5.2 0.4 - - + -
173B LEU* 4.2 18.2 - - + -
176B TRP* 4.9 0.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 144 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B ILE* 2.9 28.5 + - + +
141B LEU* 3.9 5.8 - - + +
143B ALA* 1.3 73.1 - - - +
145B ASP* 1.3 60.1 + - - +
147B CYS* 3.3 5.0 + - - -
148B HIS* 2.8 48.0 + - + +
154B HIS* 4.6 2.7 - - + -
157B VAL* 3.8 20.9 - - + -
173B LEU* 3.8 23.6 - - + -
214B ASP* 4.1 30.3 - - + +
215B MET* 4.4 9.2 - - - -
218B LEU* 3.8 30.3 - - + -
315B ALA* 4.6 4.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 145 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B TYR* 3.3 26.1 + - - -
141B LEU 2.9 17.9 + - - +
142B LYS* 3.9 4.5 - - - +
144B LEU* 1.3 76.5 - - - +
146B TYR* 1.3 58.7 + - - +
148B HIS* 3.6 4.5 - - - +
149B SER* 2.8 31.0 + - - -
315B ALA* 3.6 15.5 - - + +
316B ARG* 3.7 44.6 + - - +
319B MET* 4.3 8.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 146 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LYS* 5.8 7.2 - - - -
170A LYS* 3.9 24.9 + - - -
87B ASN 4.6 2.3 + - - -
88B LEU* 4.0 15.0 - - + -
89B ARG 4.7 1.4 + - - -
90B GLY 4.5 4.4 - - - -
91B GLY* 3.4 29.8 + - - -
92B PRO* 3.5 24.7 - - + -
94B ILE* 4.0 9.6 - - + -
142B LYS 3.1 17.2 + - - +
143B ALA 4.1 3.1 - - - +
144B LEU 3.3 0.2 - - - -
145B ASP* 1.3 81.0 + - - +
147B CYS* 1.3 59.1 + - - +
149B SER* 2.6 23.7 + - - -
150B MET* 3.0 50.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 147 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B LEU* 3.7 21.5 - - + -
94B ILE* 4.4 1.3 - - + -
143B ALA 3.2 13.6 + - - +
144B LEU* 3.4 19.3 - - - -
146B TYR* 1.3 75.0 - - - +
148B HIS* 1.3 69.2 + - - +
150B MET 3.2 6.4 + - - -
151B GLY 3.2 0.2 + - - -
152B ILE* 2.7 46.5 + - + +
154B HIS* 4.6 5.2 - - - -
176B TRP* 3.6 38.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B TYR* 3.4 30.3 - - + +
144B LEU* 2.8 35.2 + - + +
145B ASP 3.6 4.0 - - - +
147B CYS* 1.3 81.0 - - - +
149B SER* 1.3 57.7 + - - +
151B GLY 3.0 14.0 + - - -
152B ILE 3.4 17.0 - - - -
211B TYR* 3.4 45.5 - - + +
214B ASP* 2.9 26.2 + - + +
215B MET* 4.0 17.5 - - - -
337B CL 2.7 27.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A ALA* 3.5 22.0 - - - +
12B TYR* 3.5 33.6 - - - -
15B VAL* 3.6 12.2 - - - +
19B ARG* 5.3 1.7 + - - -
145B ASP* 2.8 16.3 + - - -
146B TYR* 2.6 28.5 + - - -
148B HIS* 1.3 75.2 - - - +
150B MET* 1.3 74.2 + - - +
151B GLY 3.2 2.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A LYS* 5.4 5.4 - - - -
332A ALA* 4.5 8.3 - - + -
334A MET* 4.5 4.7 - - + -
15B VAL* 4.5 1.6 - - - -
16B ASN* 4.2 2.0 - - - -
19B ARG* 3.6 29.2 - - - +
23B TYR* 2.6 41.6 + - - +
87B ASN 4.7 7.4 - - - +
88B LEU* 3.8 14.8 - - + -
146B TYR* 3.0 53.5 + - + +
147B CYS 3.2 5.1 + - - +
148B HIS 3.1 0.8 - - - -
149B SER* 1.3 107.7 - - - +
151B GLY* 1.3 60.6 + - - +
152B ILE* 3.3 7.4 + - + +
----------------------------------------------------------
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