Contacts of the helix formed by residues 1441 - 1456 (chain B) in PDB entry 1G50
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 GLN1441 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1393B TRP* 3.5 1.3 - - - -
1439B ASN* 3.6 31.0 + - - +
1440B LEU* 1.3 73.5 + - - +
1442B GLY* 1.3 60.2 + - - +
1443B GLU* 2.6 41.8 + - - +
1444B GLU* 2.7 34.3 + - - +
1445B PHE 3.4 5.9 + - - -
1489B LEU* 5.6 0.9 - - + -
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Residues in contact with GLY1442 (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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1320B LEU* 4.5 8.5 - - - +
1393B TRP* 3.0 29.8 - - - -
1441B GLN* 1.3 74.4 + - - +
1443B GLU* 1.3 58.8 + - - +
1445B PHE* 3.0 24.4 - - - +
1446B VAL* 3.3 10.6 + - - +
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Residues in contact with GLU1443 (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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1316B VAL* 4.0 17.9 - - + +
1320B LEU* 4.5 10.3 - - + +
1441B GLN* 2.6 31.9 + - - +
1442B GLY* 1.3 70.8 + - - +
1444B GLU* 1.3 62.4 + - - +
1445B PHE 3.0 1.6 - - - -
1446B VAL* 2.8 29.1 - - - +
1447B CYS* 3.4 9.9 + - - -
1489B LEU* 3.1 48.4 - - + +
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Residues in contact with GLU1444 (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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1439B ASN 3.7 0.3 - - - +
1440B LEU* 3.3 17.2 - - + +
1441B GLN* 2.7 38.9 + - + +
1443B GLU* 1.3 73.1 - - - +
1445B PHE* 1.3 63.9 + - - +
1447B CYS* 3.1 5.4 + - - +
1448B LEU* 3.0 26.4 + - - +
1486B LEU* 3.7 22.6 - - + +
1489B LEU* 4.8 15.0 - - + +
1490B MET* 4.4 9.8 - - + +
1503B ARG* 2.5 50.7 + - - -
1507B LEU* 4.1 10.4 - - + +
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Residues in contact with PHE1445 (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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1323B GLU* 4.3 15.0 - - - -
1389B ILE* 3.6 42.6 - - + -
1390B GLY* 3.8 14.8 - - - -
1393B TRP* 3.6 62.1 - + + -
1435B PHE* 5.2 0.4 - + - -
1440B LEU* 4.4 7.0 - - + +
1441B GLN 3.4 2.0 + - - -
1442B GLY* 3.0 13.7 - - - +
1444B GLU* 1.3 78.4 - - - +
1446B VAL* 1.3 60.0 + - + +
1448B LEU* 2.9 11.3 + - - +
1449B LYS* 2.7 56.2 + - + +
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Residues in contact with VAL1446 (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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1316B VAL* 4.8 4.9 - - + +
1319B LEU* 3.5 40.9 - - + +
1320B LEU* 3.7 30.5 - - + -
1323B GLU* 3.9 21.8 - - + +
1360B TRP* 5.2 0.8 - - - +
1442B GLY 4.2 2.7 - - - +
1443B GLU* 2.8 34.3 - - + +
1445B PHE* 1.3 80.9 - - + +
1447B CYS* 1.3 61.4 + - - +
1449B LYS* 3.8 7.5 - - - +
1450B SER* 2.8 30.8 + - - -
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Residues in contact with CYS1447 (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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1316B VAL* 5.5 2.9 - - - -
1319B LEU* 4.1 13.9 - - - -
1443B GLU 3.6 10.8 - - - -
1444B GLU 3.1 8.9 + - - +
1445B PHE 3.1 0.6 - - - -
1446B VAL* 1.3 81.1 - - - +
1448B LEU* 1.3 65.3 + - - +
1450B SER* 3.0 10.7 + - - -
1451B ILE* 2.9 22.0 + - - +
1482B ILE* 4.0 13.6 - - + +
1485B THR* 4.1 26.0 - - - -
1486B LEU* 3.2 40.8 - - + -
1489B LEU* 5.7 1.6 - - - -
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Residues in contact with LEU1448 (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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1389B ILE* 3.7 14.6 - - + -
1435B PHE* 4.4 13.7 - - + -
1440B LEU* 3.9 21.5 - - + -
1444B GLU 3.0 14.3 + - - +
1445B PHE* 2.9 7.7 + - - +
1447B CYS* 1.3 76.6 - - + +
1449B LYS* 1.3 58.4 + - - +
1450B SER 2.9 6.1 + - - -
1451B ILE* 2.9 22.9 + - + +
1452B ILE* 3.3 15.0 + - - +
1486B LEU* 5.3 4.7 - - + -
1507B LEU* 3.4 47.3 - - + +
1508B LEU* 4.8 2.5 - - + -
1511B LEU* 3.6 33.6 - - + +
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Residues in contact with LYS1449 (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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1323B GLU* 2.9 38.9 + - - +
1324B PRO* 3.4 21.4 - - - +
1357B MET* 6.1 1.1 - - - -
1360B TRP* 3.0 38.4 - - + -
1386B ILE* 3.9 27.6 - - + +
1389B ILE* 3.8 20.1 - - + +
1390B GLY* 5.7 3.2 - - - -
1445B PHE* 2.7 38.5 + - + +
1446B VAL* 4.0 6.1 - - - +
1448B LEU* 1.3 72.5 - - - +
1450B SER* 1.3 57.6 + - - +
1452B ILE* 4.3 6.5 - - - +
1453B LEU 4.0 8.3 + - - -
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Residues in contact with SER1450 (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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1319B LEU* 3.2 30.1 - - - +
1360B TRP* 3.5 19.8 - - - -
1364B VAL* 4.1 10.5 - - - +
1446B VAL 2.8 20.5 + - - -
1447B CYS* 3.0 6.5 + - - -
1448B LEU 2.9 0.2 + - - -
1449B LYS* 1.3 76.7 - - - +
1451B ILE* 1.3 63.9 + - - +
1452B ILE 3.4 0.9 - - - -
1453B LEU* 3.7 4.4 - - - +
1454B LEU* 3.6 28.8 + - - +
1482B ILE* 4.4 9.5 - - - +
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Residues in contact with ILE1451 (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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1447B CYS 2.9 24.7 - - - +
1448B LEU* 2.9 12.3 + - + +
1450B SER* 1.3 76.0 - - - +
1452B ILE* 1.3 58.1 + - - +
1453B LEU 3.1 1.1 - - - -
1455B ASN* 2.7 41.2 + - + +
1479B LEU* 3.7 14.1 - - + +
1482B ILE* 3.8 28.3 - - + -
1483B THR* 5.8 0.9 - - - +
1486B LEU* 4.4 15.3 - - + -
1508B LEU* 4.5 14.1 - - + -
1511B LEU* 4.3 5.4 - - + -
2509C LEU* 3.7 39.0 - - + -
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Residues in contact with ILE1452 (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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1382B ALA* 3.4 3.1 - - + +
1385B GLU* 3.6 45.5 - - + +
1386B ILE* 3.6 23.1 - - + -
1389B ILE* 3.9 34.3 - - + -
1448B LEU 3.3 9.4 + - - +
1449B LYS* 4.3 3.4 - - - +
1451B ILE* 1.3 79.4 - - - +
1453B LEU* 1.3 61.6 + - - +
1455B ASN* 5.1 0.4 - - - -
1456B SER* 3.1 31.1 + - - +
1511B LEU* 4.0 23.8 - - + -
1514B ILE* 4.2 9.4 - - + -
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Residues in contact with LEU1453 (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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1360B TRP* 3.5 21.5 - - + -
1361B ALA* 4.1 6.1 - - - -
1364B VAL* 3.5 39.5 - - + -
1367B PHE* 4.0 24.7 - - + -
1378B LEU* 3.5 24.9 - - - +
1379B LEU* 3.8 37.5 - - + -
1382B ALA* 4.6 1.3 - - - -
1386B ILE* 3.9 18.4 - - + +
1449B LYS 4.0 1.2 + - - -
1450B SER 3.7 8.4 - - - +
1452B ILE* 1.3 82.2 - - - +
1454B LEU* 1.3 58.0 + - + +
1456B SER 4.5 1.2 - - - +
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Residues in contact with LEU1454 (chain B).
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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1364B VAL* 4.4 12.1 - - + -
1365B PRO 4.5 1.8 - - - +
1366B GLY 5.5 1.8 - - - +
1367B PHE* 4.0 24.0 - - + +
1370B LEU* 4.6 6.7 - - + -
1378B LEU* 3.7 29.9 - - + +
1450B SER 3.6 15.2 + - - +
1451B ILE 3.3 1.8 + - - -
1453B LEU* 1.3 84.6 - - + +
1455B ASN* 1.3 59.2 + - - +
1456B SER 3.6 0.2 - - - -
1458B VAL* 3.3 20.1 - - - +
1475B ILE* 3.4 28.1 - - + +
1478B VAL* 4.2 24.0 - - + -
1479B LEU* 3.7 20.0 - - + -
1482B ILE* 4.2 4.5 - - + -
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Residues in contact with ASN1455 (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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1451B ILE* 2.7 27.6 + - + +
1452B ILE* 5.1 0.9 - - - -
1454B LEU* 1.3 73.2 - - - +
1456B SER* 1.3 63.0 + - - +
1457B GLY 3.1 2.1 + - - -
1458B VAL* 2.9 23.3 - - - +
1459B TYR* 3.1 26.2 + - - -
1479B LEU* 3.8 16.2 - - + +
1511B LEU* 5.7 0.4 - - - +
1515B ARG* 4.8 1.5 + - - +
2434C ARG* 5.5 0.2 + - - -
2509C LEU* 3.2 50.3 + - - +
2512C SER* 3.9 12.1 + - - -
2513C HIS* 5.0 0.8 - - - +
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Residues in contact with SER1456 (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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1378B LEU* 4.1 13.9 - - - +
1381B CYS* 4.0 13.1 - - - +
1382B ALA* 3.5 9.9 - - - -
1385B GLU* 2.7 40.8 + - - -
1452B ILE* 3.1 24.9 + - - +
1453B LEU 4.5 0.2 - - - +
1455B ASN* 1.3 75.5 + - - +
1457B GLY* 1.3 64.6 + - - +
1515B ARG* 3.4 16.1 + - - +
2512C SER* 4.6 1.7 + - - -
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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