Contacts of the helix formed by residues 1365 - 1385 (chain C) in PDB entry 3FK2
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 PRO1365 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1334C PRO* 4.1 24.7 - - + -
1336C ASN* 5.4 4.5 - - - +
1337C MET* 4.3 6.7 - - + -
1363C LYS 3.5 6.0 - - - +
1364C PHE* 1.3 84.6 - - + +
1366C LYS* 1.3 61.0 + - - +
1367C GLU* 4.1 9.0 - - - +
1368C ASN* 3.1 24.0 + - - +
1369C HIS* 2.9 24.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1366 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1364C PHE 3.3 4.8 + - - -
1365C PRO* 1.3 69.2 - - - +
1367C GLU* 1.3 76.8 + - - +
1369C HIS* 4.2 6.7 - - + -
1370C GLU* 3.1 43.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1367 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251C LEU* 4.3 8.3 - - + -
1252C THR* 3.6 32.1 - - + +
1255C VAL* 4.5 20.4 - - + +
1256C THR 6.5 0.2 - - - -
1257C PRO* 5.8 5.0 - - + +
1260C PRO* 4.7 3.9 - - - +
1365C PRO* 4.1 9.2 - - - +
1366C LYS* 1.3 86.4 + - - +
1368C ASN* 1.3 67.1 + - - +
1370C GLU* 3.5 5.3 + - - +
1371C VAL* 3.4 24.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1368 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251C LEU* 4.1 21.3 - - - +
1331C PRO 4.2 4.4 + - - -
1332C LEU* 2.9 33.9 + - + +
1334C PRO* 3.6 18.7 - - + +
1364C PHE* 4.6 5.8 - - + -
1365C PRO* 3.1 27.7 + - + +
1367C GLU* 1.3 78.8 - - - +
1369C HIS* 1.3 57.3 + - - +
1371C VAL* 3.1 2.6 + - - +
1372C PHE* 2.7 37.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1369 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1361C LEU* 3.3 54.7 + - + +
1362C LYS* 5.5 1.1 - - - -
1364C PHE* 3.7 17.7 - - + +
1365C PRO 2.9 17.0 + - - +
1366C LYS* 3.3 10.1 + - + +
1368C ASN* 1.3 77.1 - - - +
1370C GLU* 1.3 75.8 + - - +
1372C PHE* 3.7 2.4 - - - +
1373C LYS* 2.8 36.0 + - + +
1435C PHE 5.2 1.3 - - - -
1436C PHE* 4.1 15.0 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU1370 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1260C PRO* 3.9 33.1 - - + +
1261C ILE* 3.8 8.6 - - + +
1366C LYS* 3.1 41.5 + - + +
1367C GLU* 3.7 4.7 - - - +
1369C HIS* 1.3 96.0 - - - +
1371C VAL* 1.3 65.9 + - - +
1373C LYS* 3.2 20.9 + - - +
1374C TYR* 2.9 23.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1371 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251C LEU* 4.2 15.5 - - + -
1255C VAL* 4.8 0.4 - - + -
1260C PRO 3.6 20.9 - - - +
1261C ILE* 4.2 7.0 - - + -
1262C PRO* 3.9 21.8 - - + -
1265C ILE* 5.3 2.7 - - + -
1325C PHE* 3.5 38.4 - - + -
1332C LEU* 3.8 13.2 - - + -
1367C GLU 3.4 14.8 + - - +
1368C ASN 3.1 2.0 + - - +
1370C GLU* 1.3 75.3 - - - +
1372C PHE* 1.3 64.2 + - - +
1374C TYR* 3.2 2.6 + - + +
1375C VAL* 2.9 30.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE1372 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1332C LEU* 3.9 19.0 - - + +
1333C VAL* 3.5 27.8 - - + -
1361C LEU* 4.1 7.2 - - + -
1364C PHE* 4.1 20.6 - + + -
1368C ASN 2.7 22.7 + - - +
1369C HIS* 3.7 6.1 - - - +
1371C VAL* 1.3 72.4 - - - +
1373C LYS* 1.3 64.2 + - - +
1375C VAL* 3.9 1.5 - - + +
1376C ILE* 2.9 59.1 + - + +
1404C LEU* 4.1 14.1 - - + -
1405C MET* 5.5 0.7 - - + -
1425C ILE* 4.0 16.8 - - + -
1428C PHE* 4.0 33.9 - + - -
1436C PHE* 3.9 13.2 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1373 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1369C HIS* 2.8 26.3 + - + +
1370C GLU* 3.2 23.9 + - - +
1372C PHE* 1.3 75.8 - - - +
1374C TYR* 1.3 56.9 + - - +
1376C ILE* 3.8 0.9 - - - +
1377C SER* 2.4 38.9 + - - +
1436C PHE* 2.9 71.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR1374 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1261C ILE* 3.6 42.6 - - + -
1265C ILE* 3.8 12.1 - - + -
1266C GLU* 3.4 32.4 - - + +
1269C ILE* 3.4 39.6 - - + +
1270C GLU* 3.8 16.1 + - - +
1370C GLU 2.9 13.0 + - - +
1371C VAL* 3.2 8.3 + - + +
1373C LYS* 1.3 77.5 - - - +
1375C VAL* 1.3 63.2 + - + +
1377C SER* 3.4 4.3 + - - -
1378C HIS* 3.0 24.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1375 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1265C ILE* 4.8 3.1 - - + -
1269C ILE* 4.4 5.6 - - + -
1321C MET* 3.9 19.5 - - + -
1325C PHE* 3.5 33.2 - - + -
1332C LEU* 4.5 3.8 - - + -
1371C VAL* 2.9 27.4 + - + +
1372C PHE* 3.9 4.5 - - + +
1374C TYR* 1.3 71.0 - - + +
1376C ILE* 1.3 59.3 + - + +
1378C HIS* 3.2 9.7 + - + +
1379C LEU* 2.9 43.2 + - + +
1400C PHE* 4.5 12.3 - - + -
1404C LEU* 4.6 13.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE1376 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1372C PHE* 2.9 65.6 + - + +
1373C LYS 3.9 2.0 - - - +
1375C VAL* 1.3 73.5 - - + +
1377C SER* 1.3 58.3 + - - +
1379C LEU* 3.1 14.5 + - + +
1380C ASN* 2.8 26.3 + - - +
1404C LEU* 4.5 8.5 - - + -
1425C ILE* 4.6 4.7 - - + -
1428C PHE* 3.1 35.9 - - + +
1429C ILE* 3.8 21.0 - - + +
1432C CYS* 4.2 4.3 - - - -
1436C PHE* 3.8 14.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER1377 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1373C LYS* 2.4 39.5 + - - +
1374C TYR* 3.5 5.4 + - - -
1376C ILE* 1.3 75.0 - - - +
1378C HIS* 1.3 63.5 + - - +
1380C ASN* 3.0 4.5 + - - +
1381C LYS* 2.9 23.0 + - - +
1432C CYS* 3.5 23.2 - - - -
1436C PHE* 5.5 1.2 - - - +
1437C TYR* 5.7 5.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1378 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1269C ILE* 3.3 41.9 - - + +
1272C ILE* 4.1 8.0 - - + +
1273C GLU* 2.9 46.0 + - + +
1277C LEU* 5.0 0.2 - - + -
1283C TYR* 2.7 37.3 + + - -
1321C MET* 5.1 2.5 - - + -
1374C TYR* 3.0 15.5 + - + +
1375C VAL* 3.2 8.5 + - + +
1377C SER* 1.3 76.2 - - - +
1379C LEU* 1.3 65.9 + - + +
1381C LYS* 2.9 7.9 + - - +
1382C VAL* 2.9 40.0 + - + +
1400C PHE* 6.0 0.2 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU1379 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1283C TYR* 4.0 17.5 - - + -
1375C VAL* 2.9 25.2 + - + +
1376C ILE* 3.5 14.4 - - + +
1378C HIS* 1.3 78.1 - - + +
1380C ASN* 1.3 66.6 + - - +
1382C VAL* 3.2 3.0 + - + +
1383C SER* 3.0 20.1 + - - -
1396C LEU* 3.3 22.9 - - + +
1400C PHE* 3.4 55.6 - - + -
1404C LEU* 5.2 0.4 - - + -
1429C ILE* 3.5 35.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1380 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1376C ILE 2.8 12.7 + - - +
1377C SER* 3.0 11.0 + - - +
1379C LEU* 1.3 76.4 - - - +
1381C LYS* 1.3 62.9 + - - +
1383C SER* 2.6 25.1 + - - -
1384C HIS* 3.0 39.0 + - - -
1429C ILE* 2.8 33.9 + - - +
1430C GLN* 4.2 10.1 + - - +
1432C CYS* 3.8 19.6 - - + +
1433C PRO* 4.7 5.7 - - - +
1437C TYR* 4.7 9.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS1381 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1413A ASP* 4.0 19.6 + - - +
1414A ALA* 5.2 5.8 - - + +
1415A LEU* 4.9 13.7 - - + +
1273C GLU* 3.3 39.6 + - + +
1277C LEU* 4.4 19.9 - - + +
1377C SER 2.9 11.6 + - - +
1378C HIS* 2.9 10.3 + - - +
1380C ASN* 1.3 74.6 + - - +
1382C VAL* 1.3 66.9 + - - +
1383C SER 2.9 1.6 - - - -
1384C HIS* 2.7 32.3 + - + +
1385C ASN* 3.8 3.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL1382 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1272C ILE* 5.3 1.8 - - + -
1277C LEU* 3.8 20.9 - - + -
1282C ILE* 3.8 21.8 - - + -
1283C TYR* 4.2 11.0 - - + -
1378C HIS* 2.9 45.6 + - + +
1379C LEU* 3.7 8.5 - - - +
1381C LYS* 1.3 76.6 - - - +
1383C SER* 1.3 62.4 + - - +
1385C ASN* 3.1 5.5 + - - +
1389C ASN* 2.9 40.4 + - - +
1391C MET* 4.4 2.0 - - + -
1396C LEU* 4.0 19.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER1383 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1379C LEU 3.0 11.8 + - - -
1380C ASN* 2.6 25.7 + - - -
1381C LYS 2.9 0.8 - - - -
1382C VAL* 1.3 74.8 - - - +
1384C HIS* 1.3 64.6 + - - +
1385C ASN 3.0 6.7 + - - -
1386C ASN* 2.8 31.5 + - - -
1391C MET 3.4 14.6 - - - -
1392C THR* 4.7 0.2 - - - -
1393C SER* 3.9 23.9 + - - -
1396C LEU* 3.8 11.0 - - - -
1430C GLN* 6.0 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS1384 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1415A LEU* 5.5 10.8 - - + -
1380C ASN* 3.0 44.0 + - - -
1381C LYS* 2.7 26.8 + - + +
1383C SER* 1.3 76.6 + - - +
1385C ASN* 1.3 58.3 + - - +
1386C ASN* 3.5 3.7 + - - +
1387C LYS* 5.9 1.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN1385 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1415A LEU* 6.1 4.9 - - + -
1418A THR* 4.6 14.4 - - - +
1422A GLN* 5.1 1.2 - - - +
1277C LEU* 2.8 32.6 + - + +
1278C SER* 3.5 17.4 + - - -
1381C LYS 3.8 2.2 + - - +
1382C VAL 3.1 4.4 + - - +
1383C SER 3.0 1.0 - - - -
1384C HIS* 1.3 80.6 - - - +
1386C ASN* 1.3 55.8 + - - -
1387C LYS* 3.3 4.6 - - - +
1388C VAL* 3.0 29.1 + - - +
1389C ASN* 2.8 36.9 + - - +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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