Contacts of the helix formed by residues 145 - 157 (chain K) in PDB entry 6T9L
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 145 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140K ILE 4.6 1.2 + - - -
141K ASN* 2.4 32.9 + - - +
142K MET* 3.5 24.0 + - + +
143K GLY 4.4 2.0 - - - +
144K SER* 1.3 76.2 - - - +
146K CYS* 1.3 63.5 + - - +
147K PHE* 3.2 3.4 - - - +
148K MET* 3.2 31.4 + - - -
149K SER* 3.2 15.8 + - - -
216K PHE* 4.7 11.3 - - + -
220K LEU* 4.8 8.3 - - + -
231K ALA 4.7 2.2 - - - +
232K GLY* 3.6 28.9 - - - +
86M ALA* 5.6 0.7 - - + -
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Residues in contact with CYS 146 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117D LYS* 3.3 7.2 - - - -
141K ASN* 3.3 9.0 - - - -
144K SER 3.2 3.2 - - - -
145K THR* 1.3 77.5 - - - +
147K PHE* 1.3 60.4 + - - +
149K SER* 3.6 8.8 + - - -
150K SER* 3.8 9.2 + - - -
427K HIS* 2.9 23.3 - - + +
428K TYR* 3.6 20.1 - - - +
444K ASP* 2.9 35.1 - - - +
76O GLY* 2.5 37.5 - - - +
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Residues in contact with PHE 147 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144K SER 3.2 24.5 - - - -
146K CYS* 1.3 77.2 - - - +
148K MET* 1.3 89.5 + - + +
150K SER* 3.5 5.0 + - - -
151K ILE* 3.2 27.0 - - - +
230K LEU* 4.8 7.6 - - + -
232K GLY* 4.4 8.3 - - - -
234K SER 3.8 14.1 - - - -
236K GLN* 3.6 35.4 - - + +
237K ASP 3.7 16.4 - - - -
238K ALA* 4.1 8.0 - - + +
241K PHE* 4.0 23.1 - + + -
428K TYR* 3.6 34.2 - - + -
75O GLY 3.7 9.6 + - - -
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Residues in contact with MET 148 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145K THR* 3.2 18.7 + - - +
147K PHE* 1.3 102.1 - - + +
149K SER* 1.3 65.9 + - - +
150K SER 3.2 0.2 - - - -
151K ILE* 3.2 12.6 + - - +
152K LEU* 3.3 20.1 + - + +
216K PHE* 4.9 5.4 - - + -
219K LEU* 3.8 28.3 - - + -
220K LEU* 3.9 20.2 - - + -
223K ALA* 5.4 2.7 - - + -
230K LEU 4.1 12.8 - - - +
231K ALA* 4.1 2.0 - - - +
232K GLY* 3.6 33.4 - - - -
241K PHE* 4.1 21.7 - - + -
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Residues in contact with SER 149 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139K LEU* 3.8 41.1 + - - +
141K ASN* 6.0 0.5 - - - +
145K THR* 3.2 15.1 + - - -
146K CYS 3.6 1.9 + - - -
148K MET* 1.3 78.9 - - - +
150K SER* 1.3 62.5 + - - +
152K LEU* 3.4 4.1 + - - +
153K GLN* 3.2 29.2 + - - +
216K PHE* 4.9 5.3 - - - -
443K ASN 5.8 1.1 - - - -
444K ASP* 3.3 24.1 + - - -
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Residues in contact with SER 150 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146K CYS 3.8 13.5 + - - -
147K PHE* 3.5 12.0 + - - -
148K MET 3.2 0.8 - - - -
149K SER* 1.3 82.3 + - - +
151K ILE* 1.3 72.7 + - - +
153K GLN* 3.5 15.7 + - - +
154K CYS* 3.9 9.0 + - - +
238K ALA* 5.0 0.5 - - - +
417K VAL* 4.2 12.5 - - - +
428K TYR* 4.4 13.2 - - - +
430K ALA* 3.9 32.9 - - - +
442K PHE 5.6 2.2 - - - -
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Residues in contact with ILE 151 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147K PHE 3.2 18.2 - - - +
148K MET 3.2 6.1 + - - +
150K SER* 1.3 86.4 - - - +
152K LEU* 1.3 62.2 + - + +
154K CYS* 3.1 25.8 - - - -
155K LEU* 3.6 11.9 - - + +
238K ALA* 3.9 27.4 - - + +
241K PHE* 3.8 27.6 - - + -
242K TRP* 3.8 34.1 - - + -
245K ILE* 4.9 4.5 - - + -
417K VAL* 5.2 7.2 - - + -
462K LEU* 4.6 16.2 - - + -
464K PHE* 6.1 1.6 - - + -
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Residues in contact with LEU 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139K LEU* 4.0 11.2 - - + -
148K MET* 3.3 16.8 - - + +
149K SER 3.4 4.6 + - - +
150K SER 3.3 0.6 - - - -
151K ILE* 1.3 78.3 - - + +
153K GLN* 1.3 64.7 + - - +
154K CYS 3.4 0.2 - - - -
155K LEU* 3.3 11.4 + - + +
156K ILE* 3.1 30.7 + - + +
187K LEU* 5.1 5.8 - - + -
190K ILE* 4.9 8.7 - - + -
216K PHE* 3.7 34.1 - - + -
219K LEU* 3.8 30.5 - - + -
241K PHE* 4.2 17.3 - - + -
245K ILE* 4.3 13.0 - - + -
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Residues in contact with GLN 153 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137K SER 3.3 25.7 + - - +
138K GLY* 4.5 4.4 - - - -
139K LEU* 4.2 19.4 - - - +
149K SER* 3.2 20.5 + - - +
150K SER* 3.8 9.0 - - - +
151K ILE 3.3 0.8 - - - -
152K LEU* 1.3 78.3 - - - +
154K CYS* 1.3 63.1 + - - +
156K ILE* 3.3 17.3 + - - +
157K HIS* 3.5 26.3 + - - -
194K LEU* 5.6 3.8 - - - +
430K ALA* 5.1 2.9 - - + -
432K CYS* 5.9 0.2 - - + -
442K PHE* 3.4 53.7 - - + +
443K ASN 5.4 5.5 + - - +
447K VAL* 5.6 1.4 - - - +
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Residues in contact with CYS 154 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150K SER 3.9 7.0 + - - +
151K ILE* 3.1 30.1 - - - -
153K GLN* 1.3 78.2 - - - +
155K LEU* 1.3 68.1 + - - +
157K HIS* 3.6 3.1 + - - +
158K ASN* 3.2 22.2 + - - +
242K TRP* 5.3 1.6 - - - -
415K GLY* 5.7 1.3 - - - -
417K VAL* 5.3 3.8 - - + -
432K CYS* 4.8 17.6 - - + +
464K PHE* 3.5 42.4 - - + -
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Residues in contact with LEU 155 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151K ILE* 3.6 20.0 - - + +
152K LEU* 3.3 13.6 + - + +
153K GLN 3.3 0.6 - - - -
154K CYS* 1.3 80.3 - - - +
156K ILE* 1.3 64.0 + - + +
157K HIS 3.4 0.2 - - - -
158K ASN* 3.5 27.4 + - - +
161K PHE* 3.2 40.0 - - + +
187K LEU* 5.7 8.5 - - + -
242K TRP* 3.8 33.9 - - + -
245K ILE* 5.1 17.7 - - + -
246K ILE* 5.7 2.2 - - + -
279K PHE* 5.4 4.0 - - + -
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Residues in contact with ILE 156 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135K GLY 4.4 3.4 - - - +
152K LEU* 3.1 23.7 + - + +
153K GLN* 3.6 16.8 - - - +
154K CYS 3.3 0.6 - - - -
155K LEU* 1.3 79.7 - - + +
157K HIS* 1.3 73.7 + - + +
161K PHE* 5.2 2.9 - - + -
162K ILE* 3.2 17.5 - - - +
190K ILE* 4.3 20.4 - - + -
191K VAL* 4.1 28.7 - - + +
194K LEU* 4.3 25.8 - - + -
195K TYR* 3.2 34.9 + - + +
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Residues in contact with HIS 157 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134K ASP* 3.3 26.9 + - + -
135K GLY 4.4 3.9 + - - -
136K LEU* 3.6 19.2 - - + +
153K GLN* 3.5 15.3 + - - +
154K CYS 3.6 3.5 + - - +
155K LEU 3.4 0.4 - - - -
156K ILE* 1.3 88.0 - - + +
158K ASN* 1.3 61.4 + - - +
159K PRO* 3.4 9.0 - - - +
162K ILE* 4.2 7.3 - - - +
195K TYR* 4.0 5.3 + - - -
432K CYS* 3.7 20.2 - - - -
433K LYS 4.8 5.0 - - - +
434K ILE* 3.7 22.8 - - + +
442K PHE* 3.3 38.8 - + - -
69N LEU* 5.9 0.7 - - - +
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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