Complet list of 1qfd hssp file
Complete list of 1qfd.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1QFD
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 2014-05-07
HEADER INHIBITOR 08-APR-99 1QFD
COMPND MOL_ID: 1; MOLECULE: PROTEIN (ALPHA-AMYLASE INHIBITOR); CHAIN: A; OTHE
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: AMARANTHUS HYPOCHONDRIACUS; ORGANISM_C
AUTHOR S.LU,P.DENG,X.LIU,J.LUO,R.HAN,X.GU,S.LIANG,X.WANG,L.FENG, V.LOZANOV,A.
DBREF 1QFD A 1 32 UNP P80403 IAAI_AMAHP 1 32
SEQLENGTH 32
NCHAIN 1 chain(s) in 1QFD data set
NALIGN 1
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 : IAAI_AMAHP 1QFD 1.00 1.00 1 32 1 32 32 0 0 32 P80403 Alpha-amylase inhibitor AAI OS=Amaranthus hypochondriacus GN=AAI PE=1 SV=1
## ALIGNMENTS 1 - 1
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A a 0 0 95 2 0 C
2 2 A I B -a 17 0A 24 2 0 I
3 3 A P > - 0 0 79 2 0 P
4 4 A K T 3 S+ 0 0 73 2 0 K
5 5 A W T 3 S+ 0 0 187 2 0 W
6 6 A N S < S- 0 0 75 2 0 N
7 7 A R - 0 0 174 2 0 R
8 8 A b + 0 0 4 2 0 C
9 9 A G B >> +B 15 0B 4 2 0 G
10 10 A P H >5S+ 0 0 28 2 0 P
11 11 A K H 45S+ 0 0 148 2 0 K
12 12 A M H 45S+ 0 0 122 2 0 M
13 13 A D H <5S- 0 0 111 2 0 D
14 14 A G S < - 0 0 38 2 0 C
19 19 A E T 3 S+ 0 0 175 2 0 E
20 20 A P T 3 S+ 0 0 92 2 0 P
21 21 A Y S < S- 0 0 83 2 0 Y
22 22 A T - 0 0 93 2 0 T
23 23 A b B -C 31 0C 33 2 0 C
24 24 A T S S+ 0 0 96 2 0 T
25 25 A S - 0 0 47 2 0 S
26 26 A D S S+ 0 0 74 2 0 D
27 27 A Y S S- 0 0 167 2 0 Y
28 28 A Y S S+ 0 0 148 2 0 Y
29 29 A G - 0 0 17 2 0 G
30 30 A N - 0 0 90 2 0 N
31 31 A c B C 23 0C 1 2 0 C
32 32 A S 0 0 94 2 0 S
## 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 2 0 0 0.000 0 1.00
2 2 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
3 3 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
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 2 0 0 0.000 0 1.00
5 5 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
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 2 0 0 0.000 0 1.00
7 7 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
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
10 10 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
11 11 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 2 0 0 0.000 0 1.00
12 12 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 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 2 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
15 15 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
16 16 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
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 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 0 0 100 0 0 2 0 0 0.000 0 1.00
20 20 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
21 21 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 2 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 2 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 2 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 2 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 100 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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