Contacts of the helix formed by residues 193 - 212 (chain A) in PDB entry 4LT6
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 193 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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125A ARG* 4.5 1.8 - - - +
192A LEU* 1.3 72.4 - - - +
194A ILE* 1.3 63.9 + - - +
195A ARG* 2.9 65.5 + - - -
196A CYS* 2.5 43.9 + - - +
197A ILE 3.0 8.0 + - - -
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Residues in contact with ILE 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192A LEU 3.4 3.2 + - - +
193A ASP* 1.3 75.5 - - - +
195A ARG* 1.3 70.3 + - + +
197A ILE* 3.7 16.4 - - + +
198A ARG* 3.0 53.4 + - + +
296A LEU* 5.5 9.0 - - + -
297A PRO* 6.5 0.4 - - + -
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Residues in contact with ARG 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ARG* 3.7 57.0 + - - +
126A SER* 5.7 0.8 - - - +
149A GLU* 5.4 5.1 + - - -
154A PRO* 4.6 13.4 - - + +
193A ASP* 2.8 36.5 + - - +
194A ILE* 1.3 86.3 - - + +
196A CYS* 1.3 60.8 + - - +
198A ARG* 3.5 11.6 + - - +
199A SER* 3.1 25.6 + - - -
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Residues in contact with CYS 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125A ARG* 3.4 28.3 - - - +
170A ALA* 4.2 3.2 - - + +
171A ARG* 3.5 47.6 - - - +
192A LEU* 4.4 11.0 - - + -
193A ASP* 2.5 31.4 + - + +
195A ARG* 1.3 75.7 - - - +
197A ILE* 1.3 58.3 + - - -
199A SER* 3.3 6.3 + - - -
200A LEU* 3.1 27.9 + - - +
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Residues in contact with ILE 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189A LEU* 3.8 37.0 - - + +
192A LEU* 3.2 42.8 - - + +
193A ASP 3.0 10.6 + - - +
194A ILE* 3.7 18.8 - - + +
195A ARG 3.2 0.4 - - - -
196A CYS* 1.3 74.5 - - - +
198A ARG* 1.3 67.8 + - + +
199A SER 3.0 1.6 - - - -
200A LEU* 3.2 16.7 + - - +
201A ASN* 3.3 11.8 + - + +
204A ARG* 5.9 0.2 - - - -
296A LEU* 4.4 22.9 - - + -
320A PRO* 4.5 14.4 - - + -
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Residues in contact with ARG 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A PHE* 2.7 80.4 + - + +
153A VAL* 3.6 23.1 - - + +
154A PRO* 5.6 1.3 - - + +
194A ILE* 3.0 45.4 + - + +
195A ARG* 4.1 10.9 - - - +
196A CYS 3.4 0.2 - - - -
197A ILE* 1.3 79.2 - - + +
199A SER* 1.3 60.9 + - - +
201A ASN* 3.3 20.6 - - - +
202A GLY 4.3 2.1 + - - -
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Residues in contact with SER 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A PHE* 5.6 1.6 - - - -
116A LEU* 3.5 18.3 - - - +
125A ARG* 3.5 8.1 + - - -
153A VAL* 3.8 17.7 - - - +
154A PRO* 4.1 2.9 - - - +
168A VAL* 3.8 10.8 - - - +
169A PHE 2.9 35.0 + - - -
170A ALA* 4.2 0.9 - - - -
195A ARG 3.1 16.9 + - - -
196A CYS 3.5 6.5 - - - -
197A ILE 3.0 0.4 - - - -
198A ARG* 1.3 77.3 - - - +
200A LEU* 1.3 63.0 + - - +
201A ASN 3.2 0.6 + - - -
202A GLY* 4.2 5.2 + - - -
203A CYS 5.0 0.9 + - - -
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Residues in contact with LEU 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A LEU* 4.1 13.5 - - + -
118A VAL* 4.6 2.7 - - + -
170A ALA* 3.7 21.8 - - + -
172A LEU* 3.9 25.4 - - + -
183A LEU* 4.1 26.7 - - + +
188A ARG* 4.8 6.1 - - + -
189A LEU* 3.8 25.1 - - + -
192A LEU* 4.2 9.9 - - + -
196A CYS 3.1 14.3 + - - +
197A ILE 3.2 8.2 + - - +
199A SER* 1.3 76.1 - - - +
201A ASN* 1.3 64.0 + - - +
202A GLY 3.4 0.6 + - - -
203A CYS* 3.5 5.5 + - - +
204A ARG* 3.0 38.6 + - - +
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Residues in contact with ASN 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197A ILE* 3.3 10.8 + - + +
198A ARG* 3.3 18.4 - - - +
199A SER 3.2 1.4 - - - -
200A LEU* 1.3 77.1 - - - +
202A GLY* 1.3 53.6 + - - +
204A ARG* 3.2 6.9 + - - +
205A VAL* 2.8 49.8 + - - +
316A THR* 4.4 9.6 - - - +
318A ALA* 4.6 9.4 - - - +
319A TYR 4.9 4.5 - - - +
320A PRO* 4.9 10.8 + - - +
322A GLN* 5.9 5.1 - - - +
601A 3AT 3.4 29.5 + - - -
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Residues in contact with GLY 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A PHE* 3.5 32.5 - - - -
198A ARG 4.3 2.8 + - - -
199A SER 4.2 3.9 + - - -
200A LEU 3.4 1.0 - - - -
201A ASN* 1.3 76.0 - - - +
203A CYS* 1.3 65.0 + - - +
205A VAL* 3.9 1.7 - - - +
206A THR* 3.1 26.2 + - - -
601A 3AT 4.3 13.5 + - - -
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Residues in contact with CYS 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A PHE* 3.5 33.7 - - + -
98A THR 3.9 6.7 - - - -
99A PHE* 3.7 27.1 - - - -
116A LEU* 3.5 17.5 - - + -
183A LEU* 3.7 21.3 - - + -
199A SER 5.0 1.0 + - - -
200A LEU 3.5 4.9 + - - +
201A ASN 3.5 0.2 - - - -
202A GLY* 1.3 73.1 - - - +
204A ARG* 1.3 66.6 + - - +
206A THR 3.0 2.1 + - - -
207A ASP* 2.8 36.2 + - - +
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Residues in contact with ARG 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183A LEU* 2.9 35.8 + - + +
184A ARG* 3.2 21.3 + - - +
185A ASP 3.2 13.9 + - - -
186A ASP* 2.4 31.5 + - - +
189A LEU* 3.6 24.0 - - - +
197A ILE 5.9 0.2 - - - -
200A LEU* 3.0 35.0 + - + +
201A ASN* 3.2 8.3 + - - +
203A CYS* 1.3 75.0 - - - +
205A VAL* 1.3 56.4 + - - +
207A ASP* 3.9 3.8 - - - +
208A GLU* 2.9 33.5 + - + +
318A ALA* 3.8 17.7 - - + +
319A TYR 2.5 35.7 + - - +
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Residues in contact with VAL 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201A ASN* 2.8 29.5 + - - +
202A GLY 3.9 2.5 - - - +
204A ARG* 1.3 70.6 - - - +
206A THR* 1.3 70.5 + - - +
208A GLU* 3.0 5.4 + - - +
209A ILE* 2.9 36.8 + - + +
246A VAL* 3.8 29.2 - - + -
250A MET* 5.0 0.4 - - - -
316A THR* 3.4 36.3 - - + +
317A PRO* 4.2 9.0 - - + -
318A ALA* 4.2 6.3 - - + -
601A 3AT 3.6 17.9 - - + +
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Residues in contact with THR 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A PHE* 3.4 6.6 - - - +
100A GLY* 3.1 25.9 + - - +
103A ARG* 3.3 33.7 - - + -
104A LEU* 4.0 20.8 - - + +
202A GLY 3.1 14.5 + - - -
203A CYS 3.0 2.6 + - - -
205A VAL* 1.3 84.3 - - - +
207A ASP* 1.3 62.8 + - - +
209A ILE* 3.2 16.8 + - - +
210A LEU* 3.3 13.6 + - + +
246A VAL* 5.8 1.0 - - - +
601A 3AT 3.8 8.1 + - - -
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Residues in contact with ASP 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A PHE* 5.8 5.5 - - - -
98A THR 4.6 0.9 - - - +
103A ARG* 3.8 34.0 + - - -
183A LEU* 6.4 2.2 - - + -
184A ARG* 4.5 9.4 - - + +
203A CYS* 2.8 35.5 + - - +
204A ARG* 4.1 3.8 - - - +
206A THR* 1.3 72.6 - - - +
208A GLU* 1.3 57.7 + - - +
210A LEU* 3.6 5.7 + - - +
211A HIS* 2.4 46.7 + - + -
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Residues in contact with GLU 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184A ARG* 3.5 39.1 + - + +
204A ARG* 2.9 24.9 + - + +
205A VAL* 3.0 5.8 + - - +
207A ASP* 1.3 73.4 - - - +
209A ILE* 1.3 66.7 + - - +
211A HIS* 3.0 10.9 + - - -
212A LEU* 3.1 42.5 + - - +
287A LYS* 3.6 27.6 + - - +
317A PRO* 3.8 15.9 - - + -
318A ALA* 4.0 21.0 - - + +
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Residues in contact with ILE 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104A LEU* 4.8 7.0 - - + -
205A VAL* 2.9 30.0 + - + +
206A THR* 3.2 9.6 + - - +
208A GLU* 1.3 75.4 - - - +
210A LEU* 1.3 64.2 + - - +
212A LEU* 2.9 19.4 + - - +
213A VAL* 3.4 11.8 + - - +
219A PHE* 3.9 21.1 - - + -
246A VAL* 4.5 4.7 - - + -
249A ALA* 4.3 15.5 - - + +
250A MET* 3.8 23.8 - - + -
253A ALA* 3.8 27.1 - - + +
286A LEU* 4.3 11.0 - - + -
317A PRO* 4.5 3.4 - - + -
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Residues in contact with LEU 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A ARG* 3.8 48.5 - - + +
104A LEU* 3.6 29.8 - - + +
206A THR 3.3 13.1 + - - +
207A ASP* 3.9 9.0 - - - +
208A GLU 3.3 0.2 - - - -
209A ILE* 1.3 79.9 - - - +
211A HIS* 1.3 66.6 + - + +
212A LEU 3.6 0.3 + - - -
213A VAL* 3.8 17.8 + - - +
216A LYS* 3.5 36.4 + - + -
219A PHE* 4.0 18.4 - - + -
220A ARG* 5.0 9.0 - - - +
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Residues in contact with HIS 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A TYR* 3.4 19.9 + - - -
103A ARG* 5.8 2.0 - - - -
182A ASP* 5.9 0.2 + - - -
184A ARG* 3.3 40.8 + - - +
207A ASP* 2.4 42.8 + - + -
208A GLU* 3.0 4.9 + - - +
209A ILE 3.0 1.0 - - - -
210A LEU* 1.3 83.4 - - + +
212A LEU* 1.3 63.1 + - + +
213A VAL 3.3 5.2 - - - +
216A LYS* 5.4 6.0 - - - +
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Residues in contact with LEU 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A TYR* 3.5 21.2 - - + +
208A GLU* 3.1 36.6 - - - +
209A ILE* 2.9 8.7 + - - +
211A HIS* 1.3 80.8 - - + +
213A VAL* 1.3 59.6 + - - +
253A ALA* 5.9 1.1 - - + -
257A GLN* 2.9 39.4 + - - +
286A LEU* 3.8 29.8 - - + +
287A LYS* 4.1 23.1 - - + +
317A PRO* 3.9 17.0 - - + -
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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
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Atomic class I II III IV V VI VII VIII
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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