Complet list of 1agg hssp file
Complete list of 1agg.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1AGG
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 2014-02-05
HEADER NEUROTOXIN, P-TYPE CALCIUM CHANNEL ANTA 1996-03-08 1AGG
COMPND OMEGA-AGATOXIN-IVB
SOURCE Agelenopsis aperta
AUTHOR Reily, M.D.; Thanabal, V.; Adams, M.E.
SEQLENGTH 48
NCHAIN 1 chain(s) in 1AGG data set
NALIGN 5
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 : TOG4B_AGEAP 1OMA 1.00 1.00 1 48 36 83 48 0 0 83 P37045 Omega-agatoxin-Aa4b OS=Agelenopsis aperta PE=1 SV=2
2 : TOG4A_AGEAP 1OAV 0.74 0.87 3 48 3 48 46 0 0 48 P30288 Omega-agatoxin-Aa4a OS=Agelenopsis aperta PE=1 SV=1
3 : TXC17_CUPSA 0.45 0.66 4 41 2 38 38 1 1 40 B3EWT2 Toxin CSTX-17 OS=Cupiennius salei PE=1 SV=1
4 : TXG01_LYCSI 0.43 0.52 2 41 33 72 40 0 0 82 B6DD52 U16-lycotoxin-Ls1a OS=Lycosa singoriensis PE=2 SV=1
5 : TXG02_LYCSI 0.43 0.52 2 41 33 72 40 0 0 82 B6DD53 U16-lycotoxin-Ls1b OS=Lycosa singoriensis PE=2 SV=1
## ALIGNMENTS 1 - 5
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A E 0 0 199 2 0 E
2 2 A D + 0 0 157 4 33 D EE
3 3 A N + 0 0 117 5 78 NK RR
4 4 A a - 0 0 62 6 36 CCCSS
5 5 A I B -a 19 0A 18 6 58 IIICC
6 6 A A + 0 0 90 6 28 AAPAA
7 7 A E - 0 0 118 6 47 EKKKK
8 8 A D S S+ 0 0 73 5 28 DD.EE
9 9 A Y S S+ 0 0 152 6 33 YYHYY
10 10 A G - 0 0 1 6 82 GGKQQ
11 11 A K B +C 35 0B 168 6 46 KRRWW
12 12 A b - 0 0 9 6 0 CCCCC
13 13 A T - 0 0 78 6 71 TKTDD
14 14 A W S S+ 0 0 143 6 0 WWWWW
15 15 A G S S+ 0 0 79 6 65 GGSNN
16 16 A G S S- 0 0 42 6 49 GGGTT
17 17 A T - 0 0 68 6 86 TTPRR
18 18 A K - 0 0 90 6 64 KPKPP
19 19 A c B >> -aB 5 23A 6 6 0 CCCCC
20 20 A a T 34 S+ 0 0 68 6 0 CCCCC
21 21 A R T 34 S- 0 0 174 6 82 RRNDD
22 22 A G T <4 S+ 0 0 28 6 54 GGNNN
23 23 A R B < -B 19 0A 80 6 88 RRIII
24 24 A P - 0 0 16 6 57 PGSSS
25 25 A b E +D 36 0B 6 6 0 CCCCC
26 26 A R E -D 35 0B 128 6 93 RIHII
27 27 A d E -D 34 0B 26 6 0 CCCCC
28 28 A S - 0 0 39 6 33 SSNSS
29 29 A M S S+ 0 0 185 6 100 MIIWW
30 30 A I S S- 0 0 146 6 59 IMSII
31 31 A G S S+ 0 0 32 6 0 GGGGG
32 32 A T S S+ 0 0 99 6 0 TTTTT
33 33 A N S S- 0 0 136 6 53 NNLNN
34 34 A d E - D 0 27B 3 6 0 CCCCC
35 35 A E E -CD 11 26B 60 6 33 EEKEE
36 36 A c E - D 0 25B 3 6 0 CCCCC
37 37 A T - 0 0 24 6 66 TKRKK
38 38 A P S S- 0 0 39 6 63 PPPKK
39 39 A R - 0 0 162 6 88 RRGGG
40 40 A L > - 0 0 43 6 31 LLLII
41 41 A I T 5S+ 0 0 163 6 22 IIFII
42 42 A M T 5S+ 0 0 148 3 0 MM
43 43 A E T 5S+ 0 0 145 3 0 EE
44 44 A G T 5 + 0 0 32 3 0 GG
45 45 A L < - 0 0 92 3 0 LL
46 46 A S S S+ 0 0 36 3 60 SG
47 47 A F 0 0 150 3 19 FL
48 48 A A 0 0 123 3 0 AA
## 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 0 0 0 0 0 100 0 0 2 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 0 0 50 0 50 4 0 0 0.693 23 0.67
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 40 20 0 0 40 0 5 0 0 1.055 35 0.21
4 4 A 0 0 0 0 0 0 0 0 0 0 33 0 67 0 0 0 0 0 0 0 6 0 0 0.637 21 0.64
5 5 A 0 0 67 0 0 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 6 0 0 0.637 21 0.41
6 6 A 0 0 0 0 0 0 0 0 83 17 0 0 0 0 0 0 0 0 0 0 6 0 0 0.451 15 0.72
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 33 0 0 6 1 0 0.637 21 0.53
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 40 0 60 5 0 0 0.673 22 0.71
9 9 A 0 0 0 0 0 0 83 0 0 0 0 0 0 17 0 0 0 0 0 0 6 0 0 0.451 15 0.66
10 10 A 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 17 33 0 0 0 6 0 0 1.011 33 0.18
11 11 A 0 0 0 0 0 33 0 0 0 0 0 0 0 0 33 33 0 0 0 0 6 0 0 1.099 36 0.54
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 17 0 0 0 33 6 0 0 1.011 33 0.29
14 14 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 50 0 0 17 0 0 0 0 0 0 0 33 0 6 0 0 1.011 33 0.35
16 16 A 0 0 0 0 0 0 0 67 0 0 0 33 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.50
17 17 A 0 0 0 0 0 0 0 0 0 17 0 50 0 0 33 0 0 0 0 0 6 0 0 1.011 33 0.13
18 18 A 0 0 0 0 0 0 0 0 0 50 0 0 0 0 0 50 0 0 0 0 6 0 0 0.693 23 0.36
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 17 33 6 0 0 1.011 33 0.18
22 22 A 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 0 0 0 50 0 6 0 0 0.693 23 0.46
23 23 A 0 0 50 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 0 0 6 0 0 0.693 23 0.11
24 24 A 0 0 0 0 0 0 0 17 0 33 50 0 0 0 0 0 0 0 0 0 6 0 0 1.011 33 0.42
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
26 26 A 0 0 50 0 0 0 0 0 0 0 0 0 0 17 33 0 0 0 0 0 6 0 0 1.011 33 0.07
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 17 0 6 0 0 0.451 15 0.66
29 29 A 0 0 33 33 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 1.099 36 -0.00
30 30 A 0 0 67 17 0 0 0 0 0 0 17 0 0 0 0 0 0 0 0 0 6 0 0 0.868 28 0.40
31 31 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
33 33 A 0 17 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 83 0 6 0 0 0.451 15 0.46
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 17 0 83 0 0 6 0 0 0.451 15 0.66
36 36 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
37 37 A 0 0 0 0 0 0 0 0 0 0 0 33 0 0 17 50 0 0 0 0 6 0 0 1.011 33 0.33
38 38 A 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 33 0 0 0 0 6 0 0 0.637 21 0.37
39 39 A 0 0 0 0 0 0 0 50 0 0 0 0 0 0 50 0 0 0 0 0 6 0 0 0.693 23 0.11
40 40 A 0 67 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.68
41 41 A 0 0 83 0 17 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.451 15 0.77
42 42 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
43 43 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
44 44 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
45 45 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
46 46 A 0 0 0 0 0 0 0 33 0 0 67 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.40
47 47 A 0 33 0 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.80
48 48 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
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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