Complet list of 1v90 hssp file
Complete list of 1v90.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1V90
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 2014-05-11
HEADER TOXIN 19-JAN-04 1V90
COMPND MOL_ID: 1; MOLECULE: DELTA-PALUTOXIN IT1; CHAIN: A; SYNONYM: DELTA-PAL
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: PARACOELOTES LUCTUOSUS; ORGANISM_TAXID
AUTHOR G.FERRAT,F.BOSMANS,J.TYTGAT,C.PIMENTEL,B.CHAGOT,T.NAKAJIMA, H.DARBON,G
DBREF 1V90 A 1 37 UNP P83256 TXDP1_PARLU 1 37
SEQLENGTH 37
NCHAIN 1 chain(s) in 1V90 data set
NALIGN 27
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 : TXDP1_PIRLC 1V90 1.00 1.00 1 37 1 37 37 0 0 37 P83256 Delta-amaurobitoxin-Pl1a OS=Pireneitega luctuosa PE=1 SV=1
2 : TXDP2_PIRLC 1V91 0.78 0.95 1 37 1 37 37 0 0 37 P83257 Delta-amaurobitoxin-Pl1b OS=Pireneitega luctuosa PE=1 SV=1
3 : TXC3_HOLCU 0.73 0.92 1 37 2 38 37 0 0 38 P15968 Mu-agatoxin-Hc1c OS=Hololena curta PE=1 SV=1
4 : TAG3B_AGEOR 0.70 0.92 1 37 36 72 37 0 0 74 Q5Y4V7 U3-agatoxin-Ao1b OS=Agelena orientalis PE=2 SV=1
5 : TAG3D_AGEOR 0.70 0.95 1 37 36 72 37 0 0 74 Q5Y4V5 U3-agatoxin-Ao1d OS=Agelena orientalis PE=2 SV=1
6 : TXC2_HOLCU 0.70 0.95 1 37 2 38 37 0 0 38 P60177 Mu-agatoxin-Hc1b OS=Hololena curta PE=1 SV=1
7 : TXMG3_AGEAP 0.70 0.95 1 37 2 38 37 0 0 38 P60178 Mu-agatoxin-Aa1c OS=Agelenopsis aperta PE=1 SV=1
8 : TAG3L_AGEOR 0.62 0.73 1 37 34 69 37 1 1 70 Q5Y4U7 Beta/delta-agatoxin-5 OS=Agelena orientalis PE=1 SV=1
9 : TXDP4_PIRLC 0.62 0.73 1 37 1 37 37 0 0 37 P83259 Delta-amaurobitoxin-Pl1d OS=Pireneitega luctuosa PE=1 SV=1
10 : TXMG4_AGEAP 0.62 0.84 1 37 1 37 37 0 0 37 P11060 Mu-agatoxin-Aa1d OS=Agelenopsis aperta PE=1 SV=1
11 : TXMG5_AGEAP 0.62 0.81 1 37 1 37 37 0 0 37 P11061 Mu-agatoxin-Aa1e OS=Agelenopsis aperta PE=1 SV=1
12 : TAG3A_AGEOR 0.59 0.73 1 37 34 70 37 0 0 71 Q5Y4V8 Beta/delta-agatoxin-7 OS=Agelena orientalis PE=1 SV=1
13 : TAG3C_AGEOR 0.59 0.81 1 37 35 71 37 0 0 73 Q5Y4V6 Beta/delta-agatoxin-3 OS=Agelena orientalis PE=1 SV=1
14 : TAG3G_AGEOR 0.59 0.81 1 37 36 72 37 0 0 74 Q5Y4V2 Beta/delta-agatoxin-2 OS=Agelena orientalis PE=1 SV=1
15 : TXMG2_AGEAP 0.59 0.70 1 37 1 37 37 0 0 37 P11058 Mu-agatoxin-Aa1b OS=Agelenopsis aperta PE=1 SV=1
16 : TXMG6_AGEAP 0.59 0.84 1 37 1 37 37 0 0 37 P11062 Mu-agatoxin-Aa1f OS=Agelenopsis aperta PE=1 SV=1
17 : TAG3E_AGEOR 0.57 0.78 1 37 35 71 37 0 0 73 Q5Y4V4 U3-agatoxin-Ao1e OS=Agelena orientalis PE=2 SV=1
18 : TAG3F_AGEOR 0.57 0.81 1 37 36 72 37 0 0 74 Q5Y4V3 Beta/delta-agatoxin-1 OS=Agelena orientalis PE=1 SV=1
19 : TAG3I_AGEOR 0.57 0.81 1 37 35 71 37 0 0 73 Q5Y4V0 U3-agatoxin-Ao1i OS=Agelena orientalis PE=2 SV=1
20 : TAG3J_AGEOR 0.57 0.78 1 37 35 71 37 0 0 73 Q5Y4U9 U3-agatoxin-Ao1j OS=Agelena orientalis PE=2 SV=1
21 : TAG3K_AGEOR 0.57 0.78 1 37 35 71 37 0 0 73 Q5Y4U8 Beta/delta-agatoxin-4 OS=Agelena orientalis PE=1 SV=1
22 : TXDP3_PIRLC 0.57 0.74 1 35 2 36 35 0 0 36 P83258 Delta-amaurobitoxin-Pl1c OS=Pireneitega luctuosa PE=1 SV=1
23 : TAG3H_AGEOR 0.54 0.81 1 37 36 72 37 0 0 74 Q5Y4V1 U3-agatoxin-Ao1h OS=Agelena orientalis PE=2 SV=1
24 : TXMG1_AGEAP 1EIT 0.54 0.65 1 37 1 36 37 1 1 36 P11057 Mu-agatoxin-Aa1a OS=Agelenopsis aperta PE=1 SV=1
25 : TAG3M_AGEOR 0.51 0.59 1 37 34 69 37 1 1 70 Q5Y4U6 Beta/delta-agatoxin-6 OS=Agelena orientalis PE=1 SV=1
26 : TXC1_HOLCU 0.49 0.68 1 37 1 36 37 1 1 36 P15967 Mu-agatoxin-Hc1a OS=Hololena curta PE=1 SV=1
27 : TXMO_HADIN 1KQH 0.44 0.61 2 37 2 37 36 0 0 38 P60272 U2-hexatoxin-Hi1a OS=Hadronyche infensa PE=1 SV=1
## ALIGNMENTS 1 - 27
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 117 27 48 GADEDDDDAAAEGGEDGDGGGDDEES
2 2 A a - 0 0 65 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
3 3 A L - 0 0 8 28 34 LVVVVVVVAVVAVVAVVVVVVLVVVVL
4 4 A G - 0 0 24 28 33 GGGGGGGGTGGAGGTGGGGGGNGPGGA
5 5 A E S S+ 0 0 140 28 29 EDDDDDDEKEEKEEKEEEEEEEEEEEE
6 6 A G S S+ 0 0 77 28 59 GGGGGGGNNNNNNSNSNSNNNGSNNYA
7 7 A E S S- 0 0 110 28 55 EQQQQQQGQQKKQQKQQQQQQDQGGGA
8 8 A K - 0 0 132 28 59 KRKRRRRRRQQRQQRQQQQQQWQHHRD
9 9 A b + 0 0 14 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
10 10 A A >> - 0 0 37 27 38 AAAAAAARAAAAAAAAAAAAAAARR.S
11 11 A D T 34 S+ 0 0 154 28 38 DSDDDDDDSDDDDDDDDDNDDDDDSRP
12 12 A W T 34 S+ 0 0 245 28 7 WWWWWWWWWWWWWWWWWWWWWWWWWSW
13 13 A S T <4 S- 0 0 95 28 61 SSFAAAAYAAAAASAAASAAASSYYAS
14 14 A G < - 0 0 24 28 35 GGGGGGGNGGGGGGGGGGGRGGGDNYG
15 15 A P S S+ 0 0 38 26 35 PPPPPPP.PPPPPPPPPPPPLPPE.ED
16 16 A S - 0 0 75 27 85 SYYYYYYDYHHWHYWHHYHHHSY.DDS
17 17 A c - 0 0 9 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
18 18 A a > - 0 0 26 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
19 19 A D T 3 S+ 0 0 158 28 61 DDSSSSSDDDDESKDDSKSSSGKEDDK
20 20 A G T 3 S+ 0 0 43 28 15 GGGGGGGGGGGGGGGGGGGGGEGGGGP
21 21 A F B < -A 35 0A 27 28 22 FYYYYYYFFYYLYYLYYYYYYMYFYYY
22 22 A Y - 0 0 102 28 11 YYYYYYYYYYYYYYYYYYYYYWYYYYL
23 23 A b - 0 0 26 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
24 24 A S + 0 0 58 28 49 SSSSSSSSSTTSTTSTTTTTTSTSSNS
25 25 A d + 0 0 32 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
26 26 A R S S- 0 0 190 28 39 RRRRRRRRRRRRRRRRRRRRRPQRMSI
27 27 A S S S+ 0 0 128 28 96 SSSSSSSQSYYSYYSYYYYYYGYQQQF
28 28 A M S S- 0 0 71 28 70 MMMMMMMPYFFYFFYFFFFFFFFPPPF
29 29 A P S S+ 0 0 129 28 25 PPPPPPPPPPPPPPPPPPPPPGPPPPY
30 30 A Y + 0 0 157 28 97 YYYYYYYYGKKGKKGKKKKKKKKKNYP
31 31 A d + 0 0 35 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
32 32 A R - 0 0 164 28 76 RRRRRRRIMIIMIIMIIIIIIRIIILS
33 33 A c - 0 0 31 28 0 CCCCCCCCCCCCCCCCCCCCCCCCCCC
34 34 A R - 0 0 126 28 40 RRRRRRRRRRRRRVRVVVRRRKVRRRR
35 35 A N B -A 21 0A 108 28 64 NNSSSSSNPNNPKNPNNNKKKKNNNNP
36 36 A N 0 0 105 27 41 NNDDDDDNNNNNDDSNDDDDD DNNNK
37 37 A S 0 0 154 27 48 SSSSSSSNSNNSSNSNNNSSS NNNNG
## 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 30 15 0 4 0 0 0 0 0 0 19 0 33 27 0 0 1.444 48 0.52
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 28 0 0 0.000 0 1.00
3 3 A 75 14 0 0 0 0 0 0 11 0 0 0 0 0 0 0 0 0 0 0 28 0 0 0.733 24 0.65
4 4 A 0 0 0 0 0 0 0 79 7 4 0 7 0 0 0 0 0 0 4 0 28 0 0 0.805 26 0.67
5 5 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 68 0 21 28 0 0 0.833 27 0.70
6 6 A 0 0 0 0 0 0 4 32 4 0 14 0 0 0 0 0 0 0 46 0 28 0 0 1.237 41 0.40
7 7 A 0 0 0 0 0 0 0 14 4 0 0 0 0 0 0 11 61 7 0 4 28 0 0 1.247 41 0.45
8 8 A 0 0 0 0 0 4 0 0 0 0 0 0 0 7 36 11 39 0 0 4 28 0 0 1.401 46 0.41
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 28 1 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 85 0 4 0 0 0 11 0 0 0 0 0 27 0 0 0.503 16 0.62
11 11 A 0 0 0 0 0 0 0 0 0 4 11 0 0 0 4 0 0 0 4 79 28 0 0 0.786 26 0.62
12 12 A 0 0 0 0 0 96 0 0 0 0 4 0 0 0 0 0 0 0 0 0 28 0 0 0.154 5 0.92
13 13 A 0 0 0 0 4 0 11 0 57 0 29 0 0 0 0 0 0 0 0 0 28 0 0 1.036 34 0.38
14 14 A 0 0 0 0 0 0 4 82 0 0 0 0 0 0 4 0 0 0 7 4 28 2 0 0.707 23 0.65
15 15 A 0 4 0 0 0 0 0 0 0 85 0 0 0 0 0 0 0 8 0 4 26 1 0 0.589 19 0.65
16 16 A 0 0 0 0 0 7 37 0 0 0 15 0 0 30 0 0 0 0 0 11 27 0 0 1.448 48 0.15
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 28 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 28 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 4 0 0 36 0 0 0 0 14 0 7 0 39 28 0 0 1.320 44 0.39
20 20 A 0 0 0 0 0 0 0 93 0 4 0 0 0 0 0 0 0 4 0 0 28 0 0 0.307 10 0.84
21 21 A 0 7 0 4 18 0 71 0 0 0 0 0 0 0 0 0 0 0 0 0 28 0 0 0.855 28 0.78
22 22 A 0 4 0 0 0 4 93 0 0 0 0 0 0 0 0 0 0 0 0 0 28 0 0 0.307 10 0.88
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 28 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 57 39 0 0 0 0 0 0 4 0 28 0 0 0.806 26 0.50
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 28 0 0 0.000 0 1.00
26 26 A 0 0 4 4 0 0 0 0 0 4 4 0 0 0 82 0 4 0 0 0 28 0 0 0.757 25 0.60
27 27 A 0 0 0 0 4 0 39 4 0 0 39 0 0 0 0 0 14 0 0 0 28 0 0 1.250 41 0.03
28 28 A 0 0 0 29 46 0 11 0 0 14 0 0 0 0 0 0 0 0 0 0 28 0 0 1.231 41 0.29
29 29 A 0 0 0 0 0 0 4 4 0 93 0 0 0 0 0 0 0 0 0 0 28 0 0 0.307 10 0.74
30 30 A 0 0 0 0 0 0 36 11 0 4 0 0 0 0 0 46 0 0 4 0 28 0 0 1.201 40 0.02
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 28 0 0 0.000 0 1.00
32 32 A 0 4 50 11 0 0 0 0 0 0 4 0 0 0 32 0 0 0 0 0 28 0 0 1.189 39 0.23
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 28 0 0 0.000 0 1.00
34 34 A 18 0 0 0 0 0 0 0 0 0 0 0 0 0 79 4 0 0 0 0 28 0 0 0.616 20 0.60
35 35 A 0 0 0 0 0 0 0 0 0 14 18 0 0 0 0 18 0 0 50 0 28 0 0 1.240 41 0.36
36 36 A 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 4 0 0 44 48 27 0 0 0.956 31 0.59
37 37 A 0 0 0 0 0 0 0 4 0 0 56 0 0 0 0 0 0 0 41 0 27 0 0 0.814 27 0.51
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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