Complet list of 2ab9 hssp file
Complete list of 2ab9.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2AB9
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 2014-05-14
HEADER HYDROLASE INHIBITOR 15-JUL-05 2AB9
COMPND MOL_ID: 1; MOLECULE: PRO-SFTI-1; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: HELIANTHUS ANNUUS; ORGANISM_COMMON: CO
AUTHOR J.P.MULVENNA,F.M.FOLEY,D.J.CRAIK
DBREF 2AB9 A 1 31 UNP Q4GWU5 Q4GWU5_HELAN 26 56
SEQLENGTH 31
NCHAIN 1 chain(s) in 2AB9 data set
NALIGN 4
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 : H2KY54_HELTU 1.00 1.00 1 29 22 50 29 0 0 166 H2KY54 Preproalbumin OS=Helianthus tuberosus GN=PawS1 PE=2 SV=1
2 : H2L0T2_HELAN 1.00 1.00 1 29 22 50 29 0 0 151 H2L0T2 Preproalbumin PawS1 OS=Helianthus annuus GN=PawS1 PE=2 SV=1
3 : SFTI1_HELAN 1JBN 1.00 1.00 1 31 26 56 31 0 0 56 Q4GWU5 Trypsin inhibitor 1 OS=Helianthus annuus GN=sfti1 PE=1 SV=1
4 : H2KY52_9ASTR 0.97 0.97 1 29 21 50 30 1 1 152 H2KY52 Preproalbumin OS=Helianthus exilis GN=PawS1 PE=2 SV=1
## ALIGNMENTS 1 - 4
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 121 5 0 GGGG
2 2 A Y - 0 0 153 5 0 YYYY
3 3 A K - 0 0 132 5 0 KKKK
4 4 A T S S+ 0 0 133 5 0 TTTT
5 5 A S S S- 0 0 87 5 0 SSSS
6 6 A I - 0 0 93 5 0 IIII
7 7 A S - 0 0 43 5 0 SSSS
8 8 A T + 0 0 86 5 0 TTTT
9 9 A I S S- 0 0 144 5 0 IIII
10 10 A T S S+ 0 0 124 5 0 TTTt
11 11 A I S S- 0 0 131 5 0 IIIi
12 12 A E + 0 0 115 5 0 EEEE
13 13 A D + 0 0 91 5 0 DDDD
14 14 A N - 0 0 67 5 0 NNNN
15 15 A G S S+ 0 0 28 5 0 GGGG
16 16 A R S S- 0 0 129 5 0 RRRR
17 17 A a - 0 0 67 5 0 CCCC
18 18 A T - 0 0 36 5 0 TTTT
19 19 A K S S+ 0 0 203 5 0 KKKK
20 20 A S S S- 0 0 77 5 0 SSSS
21 21 A I S S+ 0 0 101 5 0 IIII
22 22 A P S S- 0 0 36 5 0 PPPP
23 23 A P + 0 0 108 5 0 PPPP
24 24 A I S S- 0 0 86 5 0 IIII
25 25 A a S S+ 0 0 89 5 0 CCCC
26 26 A F S S- 0 0 122 5 0 FFFF
27 27 A P S S+ 0 0 56 5 0 PPPP
28 28 A D + 0 0 48 5 0 DDDD
29 29 A G - 0 0 26 5 0 GGGG
30 30 A R 0 0 118 2 0 R
31 31 A P 0 0 175 2 0 P
## 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 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
6 6 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
9 9 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 1 0.000 0 1.00
11 11 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 5 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 5 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 5 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 5 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
21 21 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
24 24 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
26 26 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 5 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 2 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 100 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
4 11 31 1 tTi
//