Contacts of the strand formed by residues 126 - 141 (chain 1) in PDB entry 1AR9
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 126 (chain 1).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1251 PHE* 1.3 72.5 - - - +
1271 TYR* 1.3 75.9 + - + +
2061 SER 3.7 0.2 - - - -
2071 HIS* 2.8 27.6 + - - +
2081 PHE* 3.8 6.0 + - + -
2691 TRP 3.0 1.0 + - - -
2701 CYS* 2.9 34.8 + - + +
2721 ARG* 3.0 31.2 + - - +
1282 PRO* 4.5 5.0 - - + +
1292 GLU* 3.5 32.8 - - + -
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Residues in contact with TYR 127 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251 PHE* 4.1 1.4 - - - +
1261 THR* 1.3 103.9 - - + +
1281 SER* 1.3 64.4 + - - +
2041 ALA* 4.0 11.9 - - + -
2051 TYR 3.2 8.5 - - - +
2061 SER* 3.7 17.7 - - - -
2071 HIS* 4.2 3.6 - - - +
2681 VAL* 3.4 4.9 - - - +
2691 TRP* 3.0 39.7 + - + +
2701 CYS* 4.2 3.8 - - - -
1282 PRO* 4.8 0.7 - - - +
1292 GLU* 2.7 31.5 + - + +
2132 VAL* 3.7 27.7 + - + +
2142 ASN* 3.2 22.6 + - - -
2152 SER* 3.5 28.5 - - - -
2262 ASN 5.3 0.3 + - - -
363 ILE* 4.1 17.5 - - + -
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Residues in contact with SER 128 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1221 LEU* 5.0 0.4 - - - -
1271 TYR* 1.3 77.2 - - - +
1291 ARG* 1.3 62.0 + - - +
1301 PHE* 3.3 25.1 - - - -
2041 ALA* 3.6 1.2 - - - +
2051 TYR* 2.7 42.5 + - - +
2071 HIS* 2.7 29.9 + - - -
2661 ILE* 4.7 2.2 - - - -
2671 ARG 3.2 12.1 - - - -
2681 VAL* 3.9 9.6 - - - -
2691 TRP* 4.0 4.9 - - - -
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Residues in contact with ARG 129 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1281 SER* 1.3 76.5 - - - +
1301 PHE* 1.3 66.5 + - - +
1981 TYR* 3.5 27.2 - - + +
2031 ASN 2.8 34.6 + - - +
2041 ALA* 4.1 3.8 - - - -
2651 HIS 3.7 1.7 - - - +
2661 ILE* 3.2 2.8 - - - +
2671 ARG* 2.8 41.9 + - + +
2691 TRP* 3.8 23.0 - - + -
303 VAL* 3.5 17.2 - - - +
313 THR 2.8 30.7 + - - -
323 PRO* 3.3 11.5 + - - +
333 PRO* 3.6 30.6 - - - +
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Residues in contact with PHE 130 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
01 SPH 4.1 15.3 - - + -
1121 TYR* 5.6 0.4 - + - -
1221 LEU* 4.3 19.3 - - + -
1281 SER* 3.3 26.2 - - - -
1291 ARG* 1.3 77.4 - - - +
1311 ASP* 1.3 76.7 + - - +
1321 MET* 3.9 25.8 + - + +
1971 PRO 4.1 1.0 - - - +
1981 TYR* 3.4 29.7 - - - +
2051 TYR* 3.6 25.8 + + - -
2071 HIS* 5.1 0.9 - - - -
2611 LEU* 4.5 7.0 - - + -
2631 PRO* 3.6 19.5 - - + -
2641 LYS 3.4 12.6 - - - +
2651 HIS 3.7 5.8 - - - -
2661 ILE* 3.8 22.7 - - + -
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Residues in contact with ASP 131 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1301 PHE* 1.3 76.6 - - - +
1321 MET* 1.3 60.3 + - - +
1951 SER* 6.1 0.2 - - - -
1961 VAL 3.4 8.1 - - - +
1971 PRO* 3.3 5.0 - - - +
1981 TYR* 3.1 22.9 + - - +
2631 PRO 3.6 1.6 - - - -
2641 LYS* 2.8 46.4 + - + +
2651 HIS* 2.8 32.6 + - - +
364 SER* 4.1 2.3 + - - +
374 ALA* 3.4 25.9 + - + +
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Residues in contact with MET 132 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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01 SPH 3.3 57.7 - - + -
1101 ILE* 5.1 4.3 - - + -
1301 PHE* 3.9 11.8 + - + +
1311 ASP* 1.3 73.2 - - - +
1331 GLU* 1.3 61.0 + - - +
1341 LEU* 3.5 39.5 + - + +
1941 ILE 3.9 0.2 - - - +
1951 SER* 3.4 3.5 - - - -
1961 VAL* 2.8 50.4 + - + +
1971 PRO 4.5 0.6 + - - +
2051 TYR* 6.0 1.1 - - - +
2611 LEU* 3.6 36.1 - - + -
2621 LYS 3.7 1.3 - - - -
2641 LYS* 5.2 0.7 - - - -
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Residues in contact with GLU 133 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
841 GLY* 6.0 0.3 - - - -
1311 ASP 3.9 0.8 + - - -
1321 MET* 1.3 72.2 - - - +
1341 LEU* 1.3 62.6 + - - +
1351 THR* 3.7 5.1 + - - +
1931 ARG* 3.3 51.6 + - + +
1941 ILE 3.5 9.6 - - - +
1951 SER* 4.4 1.3 - - - +
2601 TYR 3.3 3.6 - - - +
2611 LEU* 3.6 2.1 - - - -
2621 LYS* 2.9 75.3 + - + +
2641 LYS* 4.0 21.0 - - + +
133 TYR* 5.4 0.5 + - - -
173 ASP* 4.5 0.3 - - - +
193 PHE 3.8 17.5 + - - +
213 SER* 4.3 5.9 + - - +
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Residues in contact with LEU 134 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
01 SPH 3.8 32.1 - - + -
871 VAL* 5.3 1.3 - - + -
1081 TRP* 5.9 2.9 - - + -
1101 ILE* 5.8 5.4 - - + -
1321 MET* 3.5 34.5 + - - +
1331 GLU* 1.3 74.9 - - - +
1351 THR* 1.3 60.9 + - - +
1361 PHE* 3.6 27.7 - - + -
1931 ARG* 3.2 4.7 - - - +
1941 ILE* 2.9 43.7 + - + +
2401 LEU* 5.1 6.1 - - + -
2591 VAL* 4.1 14.8 - - + -
2601 TYR 3.2 11.4 - - - +
2611 LEU* 4.0 14.4 - - + -
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Residues in contact with THR 135 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1331 GLU* 3.7 5.9 + - - +
1341 LEU* 1.3 74.2 - - - +
1361 PHE* 1.3 64.7 + - - +
1911 PRO* 4.1 11.7 - - + +
1921 ALA 3.2 11.7 - - - +
1931 ARG* 3.0 33.1 + - + +
2581 ARG 3.6 0.5 - - - +
2591 VAL* 3.7 1.6 - - - +
2601 TYR* 2.8 42.0 + - - -
133 TYR* 3.7 48.1 + - + -
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Residues in contact with PHE 136 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
01 SPH 4.7 5.4 - - + -
1341 LEU* 3.6 40.4 - - + -
1351 THR* 1.3 73.8 - - - +
1371 VAL* 1.3 62.2 + - - +
1381 VAL* 3.9 9.3 + - + +
1571 ILE* 3.8 28.5 - - + -
1831 ILE* 3.7 23.6 - - + -
1911 PRO* 3.2 18.7 - - - +
1921 ALA* 2.8 44.1 + - + +
1941 ILE* 4.3 3.8 - - + -
2401 LEU* 3.9 25.8 - - + -
2571 ILE* 4.0 10.5 - - + -
2581 ARG 3.4 2.9 - - - +
2591 VAL* 3.8 24.9 - - + -
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Residues in contact with VAL 137 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1361 PHE* 1.3 74.0 - - - +
1381 VAL* 1.3 66.6 + - - +
1391 THR* 4.8 11.6 + - + +
1911 PRO* 4.2 13.5 - - + -
2561 LYS 3.5 1.6 - - - +
2571 ILE* 3.5 1.4 - - - -
2581 ARG* 2.8 48.0 + - + +
2601 TYR* 3.6 28.9 - - + +
133 TYR* 3.7 26.5 - - + -
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Residues in contact with VAL 138 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1361 PHE* 3.9 11.8 + - + +
1371 VAL* 1.3 80.9 - - - +
1391 THR* 1.3 69.6 + - - +
1551 TYR* 3.6 43.7 - - + +
1571 ILE* 5.5 2.5 - - + -
1851 TYR* 3.6 40.8 + - + -
1871 TYR* 3.5 13.6 - - + -
1881 GLY 5.5 0.5 + - - -
1911 PRO* 5.6 0.2 - - - +
2561 LYS 3.4 8.5 - - - +
2571 ILE* 4.0 22.7 - - + -
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Residues in contact with THR 139 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1371 VAL* 4.1 13.2 + - + -
1381 VAL* 1.3 81.1 - - - +
1401 ALA* 1.3 62.7 + - - +
1411 ASN* 5.7 0.2 - - - -
1871 TYR* 3.8 7.0 - - - +
2551 SER* 3.3 4.1 - - - -
2561 LYS* 2.8 42.9 + - - +
2581 ARG* 3.8 19.0 + - - +
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Residues in contact with ALA 140 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1391 THR* 1.3 74.0 - - - +
1411 ASN* 1.3 66.3 + - - +
1531 GLN* 3.9 2.7 - - - +
1551 TYR* 3.8 2.7 - - - +
1871 TYR* 3.0 32.2 + - + +
2531 VAL* 3.8 13.2 - - + -
2541 THR 3.4 5.8 - - - +
2551 SER* 3.4 22.7 - - - +
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Residues in contact with ASN 141 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1391 THR 5.7 0.3 - - - -
1401 ALA* 1.3 78.1 - - - +
1421 PHE* 1.3 84.8 + - - +
1431 THR* 4.0 12.5 - - - +
2531 VAL* 3.5 7.7 - - - +
2541 THR* 2.9 48.5 + - - +
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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
------------------------------------------------------------
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