Contacts of the strand formed by residues 133 - 146 (chain A) in PDB entry 6ZGI
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 PHE 133 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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110A LEU* 4.1 2.1 - - - -
111A ASP 3.8 4.9 + - - -
112A SER* 3.0 22.3 + - - +
114A THR 4.7 1.4 + - - +
116A SER* 3.6 15.1 + - - -
118A LEU* 4.1 16.4 - - + -
129A LYS* 4.1 24.7 - - + -
131A CYS* 3.5 43.6 + - + -
132A GLU* 1.3 73.0 - - - +
134A GLN* 1.3 58.6 + - - +
135A PHE* 3.5 41.9 + + + -
160A TYR* 3.7 35.4 - + + -
162A SER 3.4 2.2 - - - -
163A ALA* 3.4 26.2 - - + -
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Residues in contact with GLN 134 (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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110A LEU 4.9 0.6 + - - -
111A ASP* 3.0 25.2 - - - +
112A SER* 2.9 27.7 + - - +
132A GLU 4.0 0.6 + - - -
133A PHE* 1.3 69.4 - - - +
135A PHE* 1.3 72.3 + - - +
160A TYR* 4.1 1.6 - - - -
161A SER* 2.9 39.6 + - - +
162A SER* 3.1 25.7 + - - +
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Residues in contact with PHE 135 (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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105A ILE* 3.7 42.4 - - + -
110A LEU* 4.0 43.2 + - + +
116A SER* 3.5 27.1 - - - -
117A LEU 4.9 0.7 - - - -
118A LEU* 4.7 6.7 - - + -
133A PHE* 3.5 43.1 + + + -
134A GLN* 1.3 86.3 + - - +
136A CYS* 1.3 70.3 + - - +
137A ASN 3.9 0.9 + - - -
139A PRO* 5.2 0.7 - - + -
159A VAL* 3.4 28.7 - - + +
160A TYR* 3.9 6.5 - + + +
161A SER* 5.4 0.2 - - - -
239A GLN* 6.0 0.2 - - - +
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Residues in contact with CYS 136 (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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14A GLN 4.4 2.0 - - - -
15A CYS* 2.0 57.0 - - + -
135A PHE* 1.3 79.1 - - - +
137A ASN* 1.3 65.3 + - - +
138A ASP 3.4 17.0 + - - +
139A PRO* 3.5 14.8 - - + +
158A ARG* 4.2 10.5 - - - -
159A VAL 2.8 30.4 + - - +
160A TYR* 4.1 6.5 - - - -
239A GLN* 4.8 2.8 + - - -
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Residues in contact with ASN 137 (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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15A CYS* 5.0 2.6 - - - +
17A ASN* 4.0 13.4 + - - +
135A PHE 3.9 0.8 + - - -
136A CYS* 1.3 74.0 - - - +
138A ASP* 1.3 59.7 + - - +
139A PRO* 3.7 5.0 - - - +
239A GLN* 4.5 8.5 + - - +
1D NAG 3.0 47.1 + - - +
2D NAG 5.2 6.2 - - - +
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Residues in contact with ASP 138 (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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15A CYS* 6.0 0.2 - - - +
16A VAL 4.1 18.3 + - - +
17A ASN* 4.4 9.4 + - - +
18A LEU* 4.1 22.2 + - - +
21A ARG* 3.0 28.4 + - - -
79A PHE* 5.4 0.2 - - - -
81A ASN* 2.9 30.5 + - - +
136A CYS* 3.2 6.9 - - - +
137A ASN* 1.3 78.6 - - + +
139A PRO* 1.3 67.1 - - - +
140A PHE* 3.3 17.5 - - + -
158A ARG* 4.3 1.9 - - - +
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Residues in contact with PRO 139 (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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79A PHE* 5.5 0.2 - - - -
81A ASN* 3.9 16.1 + - - +
105A ILE* 4.5 10.8 - - + -
135A PHE* 5.2 0.4 - - + -
136A CYS* 3.5 18.4 - - + +
137A ASN 3.7 1.8 - - - +
138A ASP* 1.3 88.2 - - - +
140A PHE* 1.3 65.9 + - - +
158A ARG 3.2 12.1 - - - +
159A VAL* 4.0 25.6 - - + +
239A GLN* 3.7 31.2 - - + +
240A THR 5.0 4.7 - - - +
241A LEU* 4.6 12.4 - - + -
242A LEU 5.0 4.7 + - - -
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Residues in contact with PHE 140 (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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16A VAL* 3.5 37.9 - - + -
18A LEU* 4.2 26.9 - - + -
79A PHE* 4.7 7.0 - - + -
138A ASP* 3.3 24.0 - - - -
139A PRO* 1.3 76.4 - - - +
141A LEU* 1.3 83.9 + - - +
156A GLU* 3.8 25.4 - - + -
158A ARG* 2.9 52.3 + - + +
159A VAL* 4.0 1.9 - - - +
241A LEU* 5.6 0.7 - - - -
242A LEU 3.7 10.3 - - - +
244A LEU* 3.6 27.8 - - + -
246A ARG* 4.7 4.7 - - - -
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Residues in contact with LEU 141 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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102A ARG* 4.1 37.0 - - + +
120A VAL* 4.6 6.1 - - + -
121A ASN 5.5 0.2 - - - +
122A ASN* 5.7 1.1 - - + -
140A PHE* 1.3 95.2 - - - +
142A GLY* 1.3 58.5 + - - +
143A VAL* 6.2 0.2 - - + -
154A GLU* 3.9 7.6 - - - +
156A GLU 3.5 9.6 - - - +
157A PHE* 3.3 37.7 - - + -
159A VAL* 4.5 1.8 - - + -
241A LEU* 4.3 23.1 - - + -
242A LEU 3.1 19.6 + - - +
243A ALA* 3.3 11.7 - - + -
244A LEU* 2.9 23.4 + - - +
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Residues in contact with GLY 142 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141A LEU* 1.3 76.2 - - - +
143A VAL* 1.3 57.8 - - - -
154A GLU* 3.6 6.5 - - - +
155A SER* 2.8 32.1 + - - -
156A GLU* 2.9 42.9 + - - +
244A LEU* 4.0 5.4 - - - -
246A ARG* 6.5 0.9 - - - -
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Residues in contact with VAL 143 (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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102A ARG* 3.7 26.0 - - - +
141A LEU* 6.2 0.2 - - + -
142A GLY* 1.3 76.1 - - - +
144A TYR* 1.3 64.0 + - - +
152A TRP* 4.0 35.4 - - + -
153A MET 3.6 11.9 - - - +
154A GLU* 4.7 6.7 - - + -
155A SER* 5.3 0.2 - - - -
179A LEU* 4.6 13.7 - - + +
243A ALA* 4.6 8.3 - - + -
244A LEU 2.8 20.6 + - - +
245A HIS* 3.3 13.8 - - + +
246A ARG* 2.9 26.4 + - - +
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Residues in contact with TYR 144 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142A GLY 4.2 0.8 + - - -
143A VAL* 1.3 76.6 - - - +
145A TYR* 1.3 69.5 + - - +
146A HIS* 3.3 41.4 + + + -
151A SER 4.0 1.2 - - - +
152A TRP* 3.7 3.3 - - - -
153A MET* 2.9 32.5 + - - +
155A SER* 3.4 25.8 + - - +
246A ARG* 3.4 33.9 - - + -
247A SER* 4.4 12.6 + - - -
248A TYR* 5.1 1.0 + - - +
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Residues in contact with TYR 145 (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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143A VAL 4.4 0.2 + - - -
144A TYR* 1.3 84.7 - - - +
146A HIS* 1.3 85.6 + - - +
147A LYS* 4.0 6.1 + - + +
150A LYS* 3.7 26.9 - - + +
151A SER 3.5 18.4 - - - -
152A TRP* 3.5 58.3 - + + -
246A ARG 2.8 16.4 + - - +
247A SER* 3.8 31.0 - - - -
248A TYR* 4.7 15.9 + + - -
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Residues in contact with HIS 146 (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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144A TYR* 3.3 38.3 - + - -
145A TYR* 1.3 88.4 - - - +
147A LYS* 1.3 63.0 + - - +
148A ASN* 3.7 7.0 - - - +
149A ASN* 3.0 40.0 + - - +
150A LYS* 3.8 0.2 - - - -
151A SER* 3.4 16.5 + - - +
153A MET* 3.4 46.7 - - + +
155A SER* 5.8 0.2 - - - -
1305A NAG 3.8 25.4 + - - -
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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