Complet list of 1f3k hssp file
Complete list of 1f3k.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1F3K
THRESHOLD according to: t(L)=(290.15 * L ** -0.562) + 5
REFERENCE Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991).
CONTACT Maintained at http://www.cmbi.ru.nl/ by Maarten L. Hekkelman
DATE file generated on 2014-04-29
HEADER TOXIN 05-JUN-00 1F3K
COMPND MOL_ID: 1; MOLECULE: OMEGA-CONOTOXIN TXVII; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THIS PEPTIDE WAS CHEMICALLY
AUTHOR K.KOBAYASHI,T.SASAKI,K.SATO,T.KOHNO
DBREF 1F3K A 1 26 UNP P56714 CXO7_CONTE 1 26
SEQLENGTH 26
NCHAIN 1 chain(s) in 1F3K data set
NALIGN 2
NOTATION : ID: EMBL/SWISSPROT identifier of the aligned (homologous) protein
NOTATION : STRID: if the 3-D structure of the aligned protein is known, then STRID is the Protein Data Bank identifier as taken
NOTATION : from the database reference or DR-line of the EMBL/SWISSPROT entry
NOTATION : %IDE: percentage of residue identity of the alignment
NOTATION : %SIM (%WSIM): (weighted) similarity of the alignment
NOTATION : IFIR/ILAS: first and last residue of the alignment in the test sequence
NOTATION : JFIR/JLAS: first and last residue of the alignment in the alignend protein
NOTATION : LALI: length of the alignment excluding insertions and deletions
NOTATION : NGAP: number of insertions and deletions in the alignment
NOTATION : LGAP: total length of all insertions and deletions
NOTATION : LSEQ2: length of the entire sequence of the aligned protein
NOTATION : ACCNUM: SwissProt accession number
NOTATION : PROTEIN: one-line description of aligned protein
NOTATION : SeqNo,PDBNo,AA,STRUCTURE,BP1,BP2,ACC: sequential and PDB residue numbers, amino acid (lower case = Cys), secondary
NOTATION : structure, bridge partners, solvent exposure as in DSSP (Kabsch and Sander, Biopolymers 22, 2577-2637(1983)
NOTATION : VAR: sequence variability on a scale of 0-100 as derived from the NALIGN alignments
NOTATION : pair of lower case characters (AvaK) in the alignend sequence bracket a point of insertion in this sequence
NOTATION : dots (....) in the alignend sequence indicate points of deletion in this sequence
NOTATION : SEQUENCE PROFILE: relative frequency of an amino acid type at each position. Asx and Glx are in their
NOTATION : acid/amide form in proportion to their database frequencies
NOTATION : NOCC: number of aligned sequences spanning this position (including the test sequence)
NOTATION : NDEL: number of sequences with a deletion in the test protein at this position
NOTATION : NINS: number of sequences with an insertion in the test protein at this position
NOTATION : ENTROPY: entropy measure of sequence variability at this position
NOTATION : RELENT: relative entropy, i.e. entropy normalized to the range 0-100
NOTATION : WEIGHT: conservation weight
## PROTEINS : identifier and alignment statistics
NR. ID STRID %IDE %WSIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCNUM PROTEIN
1 : CO7_CONTE 1F3K 1.00 1.00 1 26 52 77 26 0 0 77 P56714 Omega-conotoxin TxVII OS=Conus textile PE=1 SV=2
2 : CO66_CONAA 1YZ2 0.56 0.80 1 25 1 25 25 0 0 26 P60179 Delta-conotoxin Am2766 OS=Conus amadis PE=1 SV=1
## ALIGNMENTS 1 - 2
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A a 0 0 81 3 0 CC
2 2 A K - 0 0 81 3 0 KK
3 3 A Q > - 0 0 125 3 0 QQ
4 4 A A T 3 S+ 0 0 49 3 0 AA
5 5 A D T 3 S+ 0 0 132 3 53 DG
6 6 A E < - 0 0 80 3 0 EE
7 7 A P + 0 0 81 3 73 PS
8 8 A b - 0 0 35 3 0 CC
9 9 A D - 0 0 110 3 0 DD
10 10 A V S S+ 0 0 81 3 26 VI
11 11 A F S S- 0 0 170 3 0 FF
12 12 A S S S+ 0 0 85 3 0 SS
13 13 A L + 0 0 124 3 106 LQ
14 14 A D + 0 0 6 3 53 DN
15 15 A c S > S- 0 0 12 3 0 CC
16 16 A a T 3 S+ 0 0 86 3 0 CC
17 17 A T T 3 S- 0 0 100 3 86 TV
18 18 A G S < S- 0 0 32 3 0 GG
19 19 A I - 0 0 80 3 86 IT
20 20 A b + 0 0 3 3 0 CC
21 21 A L S S- 0 0 102 3 106 LA
22 22 A G S S- 0 0 54 3 140 GF
23 23 A V S S- 0 0 39 3 26 VI
24 24 A c - 0 0 5 3 0 CC
25 25 A M 0 0 111 3 60 MI
26 26 A W 0 0 137 2 0 W
## SEQUENCE PROFILE AND ENTROPY
SeqNo PDBNo V L I M F W Y G A P S T C H R K Q E N D NOCC NDEL NINS ENTROPY RELENT WEIGHT
1 1 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 3 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 3 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 0 67 3 0 0 0.637 21 0.47
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 3 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 67 33 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.27
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 3 0 0 0.000 0 1.00
10 10 A 67 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.73
11 11 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
13 13 A 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 3 0 0 0.637 21 -0.07
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 67 3 0 0 0.637 21 0.47
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
17 17 A 33 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.13
18 18 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
19 19 A 0 0 67 0 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.13
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
21 21 A 0 67 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 -0.07
22 22 A 0 0 0 0 33 0 0 67 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 -0.40
23 23 A 67 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.73
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
25 25 A 0 0 33 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.40
26 26 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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