Contacts of the strand formed by residues 163 - 175 (chain B) in PDB entry 1ZHH
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 GLY 163 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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159B MET* 3.6 14.1 - - - -
160B THR* 2.7 35.5 + - - +
161B SER 3.6 0.6 - - - -
162B ILE* 1.3 78.4 - - - +
164B SER* 1.3 67.9 + - - -
165B ARG* 3.6 5.8 + - - +
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Residues in contact with SER 164 (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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157B ASN* 3.9 10.8 - - - -
158B VAL 3.6 7.0 - - - -
159B MET* 3.6 23.4 - - - +
163B GLY* 1.3 71.0 - - - -
165B ARG* 1.3 77.4 + - - +
166B HIS* 3.3 22.5 + - - -
193B ASP* 3.2 8.8 + - - +
220B LEU* 5.5 0.3 - - - +
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Residues in contact with ARG 165 (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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132B PHE 5.2 0.2 + - - -
133B TYR* 2.8 36.6 + - - +
135B VAL* 4.6 4.3 - - + -
156B ILE 3.4 5.2 - - - +
157B ASN* 3.4 0.9 - - - -
158B VAL* 2.9 38.7 + - - +
160B THR* 3.8 16.4 - - + -
162B ILE* 3.6 38.0 + - - +
163B GLY* 4.0 5.9 + - - +
164B SER* 1.3 92.6 + - - +
166B HIS* 1.3 62.4 + - - +
167B MET* 3.9 22.1 + - + +
191B VAL* 4.0 16.4 - - - -
193B ASP* 3.3 24.0 + - - +
194B ASN* 5.3 5.2 - - - +
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Residues in contact with HIS 166 (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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155B TYR* 3.1 29.0 + - + +
156B ILE 3.5 4.5 - - - -
157B ASN* 3.1 31.9 - - - -
164B SER* 3.3 21.2 + - - -
165B ARG* 1.3 74.1 - - - +
167B MET* 1.3 58.8 + - - +
192B LEU* 2.8 37.0 + - + +
193B ASP* 2.7 36.1 + - - +
215B ALA* 4.0 9.2 - - + -
220B LEU* 3.4 41.6 - - + +
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Residues in contact with MET 167 (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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114B PHE* 3.9 32.1 - - - -
135B VAL* 4.2 12.3 - - + -
139B ILE* 5.3 0.2 - - + -
143B LEU* 4.1 25.1 - - + -
154B TYR 3.5 0.2 - - - +
155B TYR* 3.5 9.1 - - - -
156B ILE* 2.8 38.1 + - + +
158B VAL* 3.5 32.3 - - + -
165B ARG* 4.1 15.9 - - + +
166B HIS* 1.3 80.0 - - - +
168B LEU* 1.3 65.2 + - - +
169B VAL* 4.0 13.5 - - + -
189B ALA* 4.9 0.4 - - - -
190B VAL 3.1 13.9 - - - +
191B VAL* 4.1 12.1 - - + -
192B LEU 4.7 0.2 - - - +
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Residues in contact with LEU 168 (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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25A LEU* 4.2 22.7 - - + -
64B PHE* 5.1 7.9 - - + -
68B PHE* 3.6 42.4 - - + -
153B TRP* 3.6 25.4 - - + -
154B TYR 3.2 8.7 - - - +
155B TYR* 4.1 12.3 - - + -
167B MET* 1.3 77.5 - - - +
169B VAL* 1.3 62.2 + - - +
189B ALA* 3.4 2.4 - - - -
190B VAL* 2.8 33.2 + - + +
192B LEU* 3.9 24.7 - - + +
257B VAL* 5.3 4.7 - - + -
264B LEU* 4.6 6.5 - - + -
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Residues in contact with VAL 169 (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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116B PHE* 5.3 2.9 - - + -
143B LEU* 4.8 17.7 - - + -
147B VAL* 4.0 22.7 - - + -
152B ASN 3.7 0.7 - - - +
153B TRP* 3.5 3.0 - - - -
154B TYR* 2.8 39.0 + - - +
156B ILE* 4.2 18.8 - - + -
167B MET* 4.0 20.0 - - + -
168B LEU* 1.3 79.9 - - - +
170B ARG* 1.3 64.1 + - - +
187B PHE* 4.2 19.3 - - + -
188B ASN 3.3 13.5 - - - +
189B ALA* 4.1 12.1 - - + -
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Residues in contact with ARG 170 (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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72B GLN* 3.3 37.8 + - - +
75B HIS* 3.1 33.9 + - + +
76B ASP* 3.1 26.3 + - - -
147B VAL* 4.4 5.4 - - - -
151B ASN* 3.4 36.0 + - - +
152B ASN 3.4 21.2 - - - +
153B TRP* 3.5 44.8 - - + +
169B VAL* 1.3 75.7 - - - +
171B ARG* 1.3 61.4 + - - +
172B VAL* 3.4 6.7 - - - +
187B PHE* 3.3 6.0 - - - +
188B ASN* 3.0 33.3 + - + +
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Residues in contact with ARG 171 (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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217A ASP* 4.1 15.8 + - - -
75B HIS* 4.1 0.2 - - - -
144B ALA 4.8 4.6 + - - -
147B VAL* 3.2 28.1 + - + +
148B SER* 3.2 28.2 + - - +
149B PHE 3.7 14.7 + - - +
150B SER* 3.0 19.2 + - - +
151B ASN* 2.8 29.5 + - - +
152B ASN 4.7 1.2 + - - -
170B ARG* 1.3 75.4 - - - +
172B VAL* 1.3 63.6 + - - +
185B PHE* 3.5 44.3 - - + -
186B SER 3.1 10.5 - - - +
187B PHE* 3.7 29.7 - - + -
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Residues in contact with VAL 172 (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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208A GLU* 5.6 1.3 - - - +
75B HIS* 3.7 11.2 - - + +
76B ASP* 3.4 30.1 - - + +
79B SER* 4.1 22.4 - - - +
80B LYS* 6.3 0.9 - - - +
151B ASN* 3.9 12.1 - - - +
170B ARG* 3.4 16.4 - - - +
171B ARG* 1.3 79.4 - - - +
173B PRO* 1.3 87.2 - - + +
174B ILE* 4.4 0.2 - - - +
185B PHE* 3.4 5.0 - - - -
186B SER* 2.9 31.0 + - - -
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Residues in contact with PRO 173 (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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208A GLU* 3.6 21.5 - - - +
236A TYR* 4.1 17.9 - - + +
79B SER* 4.6 2.9 - - - +
150B SER* 3.7 20.2 - - - +
151B ASN* 4.2 5.4 - - - +
172B VAL* 1.3 102.0 - - + +
174B ILE* 1.3 63.4 + - - +
175B LEU* 3.8 16.2 + - + +
182B VAL* 3.9 20.4 - - + -
184B GLY 3.5 7.0 - - - +
185B PHE* 3.6 10.2 - - + -
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Residues in contact with ILE 174 (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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79B SER* 3.6 34.3 - - - +
84B ILE* 4.0 20.0 - - + -
85B ARG* 4.4 8.7 - - + +
88B TYR* 3.7 41.7 - - + +
117B LEU* 4.7 0.2 - - + -
173B PRO* 1.3 72.0 - - - +
175B LEU* 1.3 63.1 + - - +
182B VAL* 3.6 2.4 - - - -
183B LEU* 2.9 43.4 + - + +
184B GLY 2.8 15.7 + - - +
186B SER* 3.7 31.4 - - - +
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Residues in contact with LEU 175 (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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208A GLU* 3.6 29.6 - - + +
236A TYR* 3.7 17.7 - - + -
79B SER 4.9 3.6 + - - -
80B LYS* 6.3 3.8 - - + -
85B ARG* 3.9 10.4 + - - +
173B PRO* 3.8 17.2 + - + +
174B ILE* 1.3 83.6 - - - +
176B ASP* 1.3 66.0 + - - +
177B PRO* 3.4 14.2 - - + +
180B GLY* 4.4 6.3 - - - +
181B GLU 3.3 5.2 - - - +
182B VAL* 3.7 30.7 - - + -
183B LEU* 4.6 3.8 - - - -
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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