Complet list of 1ss3 hssp file
Complete list of 1ss3.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1SS3
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 2014-05-09
HEADER ALLERGEN 23-MAR-04 1SS3
COMPND MOL_ID: 1; MOLECULE: POLLEN ALLERGEN OLE E 6; CHAIN: A; ENGINEERED: YE
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: OLEA EUROPAEA; ORGANISM_COMMON: COMMON
AUTHOR M.A.TREVINO,M.F.GARCIA-MAYORAL,P.BARRAL,M.VILLALBA, J.SANTORO,M.RICO,R
DBREF 1SS3 A 1 50 UNP O24172 ALL6_OLEEU 1 50
SEQLENGTH 50
NCHAIN 1 chain(s) in 1SS3 data set
NALIGN 20
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 : ALL6_OLEEU 1SS3 1.00 1.00 1 50 1 50 50 0 0 50 O24172 Major pollen allergen Ole e 6 OS=Olea europaea GN=OLE6 PE=1 SV=1
2 : M1BRZ4_SOLTU 0.58 0.79 2 43 25 67 43 1 1 92 M1BRZ4 Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400020057 PE=4 SV=1
3 : Q9SDN7_TOBAC 0.57 0.83 2 47 28 73 46 0 0 74 Q9SDN7 Cysteine-rich protein OS=Nicotiana tabacum PE=4 SV=1
4 : B9HJZ7_POPTR 0.55 0.71 3 44 27 68 42 0 0 72 B9HJZ7 Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0008s15540g PE=4 SV=1
5 : B9SFI5_RICCO 0.55 0.67 2 43 29 70 42 0 0 70 B9SFI5 Putative uncharacterized protein OS=Ricinus communis GN=RCOM_0646510 PE=4 SV=1
6 : F6HI54_VITVI 0.55 0.68 2 48 27 73 47 0 0 73 F6HI54 Putative uncharacterized protein OS=Vitis vinifera GN=VIT_07s0151g00670 PE=4 SV=1
7 : M1BRZ5_SOLTU 0.54 0.81 2 48 25 72 48 1 1 72 M1BRZ5 Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400020057 PE=4 SV=1
8 : K4C3P4_SOLLC 0.52 0.76 2 47 41 86 46 0 0 87 K4C3P4 Uncharacterized protein OS=Solanum lycopersicum GN=Solyc06g008640.2 PE=4 SV=1
9 : K4C3P5_SOLLC 0.52 0.74 2 47 44 89 46 0 0 90 K4C3P5 Uncharacterized protein OS=Solanum lycopersicum GN=Solyc06g008650.2 PE=4 SV=1
10 : K4CAS3_SOLLC 0.52 0.81 2 48 25 72 48 1 1 72 K4CAS3 Uncharacterized protein OS=Solanum lycopersicum GN=Solyc06g084180.2 PE=4 SV=1
11 : M1A361_SOLTU 0.52 0.80 2 47 40 85 46 0 0 86 M1A361 Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400005342 PE=4 SV=1
12 : M1AZ48_SOLTU 0.52 0.74 2 47 44 89 46 0 0 90 M1AZ48 Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400012845 PE=4 SV=1
13 : B9HUT5_POPTR 0.50 0.68 1 44 25 68 44 0 0 72 B9HUT5 Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0010s09480g PE=4 SV=1
14 : K4DCZ3_SOLLC 0.50 0.74 2 47 44 89 46 0 0 90 K4DCZ3 Uncharacterized protein OS=Solanum lycopersicum GN=Solyc12g014580.1 PE=4 SV=1
15 : M1A362_SOLTU 0.49 0.72 1 47 43 89 47 0 0 90 M1A362 Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400005343 PE=4 SV=1
16 : B9RTN0_RICCO 0.47 0.66 1 47 27 73 47 0 0 74 B9RTN0 Putative uncharacterized protein OS=Ricinus communis GN=RCOM_0911550 PE=4 SV=1
17 : M1A359_SOLTU 0.45 0.70 1 47 43 86 47 1 3 87 M1A359 Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400005340 PE=4 SV=1
18 : B9H8B0_POPTR 0.44 0.69 2 46 10 54 45 0 0 79 B9H8B0 Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0005s23380g PE=4 SV=2
19 : Q0H8T9_SOLLC 0.43 0.68 1 47 44 87 47 1 3 88 Q0H8T9 Putative anti-PCD protein OS=Solanum lycopersicum GN=JJH3 PE=4 SV=1
20 : K4DGB3_SOLLC 0.38 0.56 1 50 24 68 50 1 5 68 K4DGB3 Uncharacterized protein OS=Solanum lycopersicum GN=Solyc12g062910.1 PE=4 SV=1
## ALIGNMENTS 1 - 20
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A D 0 0 156 8 58 D A AGA AT
2 2 A E >> + 0 0 166 20 55 EED EDEAAEAAAAAATDSA
3 3 A A H 3> S+ 0 0 53 21 61 AEEDEDENTENTDATDTDTE
4 4 A Q H 3> S+ 0 0 157 21 62 QEVAQGEEEEEEQEEKDQDL
5 5 A F H <> S+ 0 0 71 21 3 FYFYFYYYYYYYFYYFYYYF
6 6 A K H X S+ 0 0 147 21 76 KKKGRKKKAQKTGTTAVVIK
7 7 A E H X S+ 0 0 121 21 83 EDRSSTDVVDDVSVVSATTG
8 8 A a H X S+ 0 0 52 21 0 CCCCCCCCCCCCCCCCCCCC
9 9 A Y H X S+ 0 0 40 21 3 YYFFFYYYYYYYFYYFYFYY
10 10 A D H X S+ 0 0 112 21 38 DHDNNEHNNHNNNNNNNNND
11 11 A T H X S+ 0 0 82 21 71 TTNTNPTDTTDITIINDDDE
12 12 A C H X S+ 0 0 17 21 0 CCCCCCCCCCCCCCCCCCCC
13 13 A H H X S+ 0 0 18 21 57 HHQEKDHQQHQQEQQEQEQV
14 14 A K H X S+ 0 0 168 21 47 KDKQKEDKKDKKQKKQKDKK
15 15 A E H < S+ 0 0 150 21 54 EEEEEEEEVEEVQLIEEKDD
16 16 A b H ><>S+ 0 0 8 21 0 CCCCCCCCCCCCCCCCCCCC
17 17 A S H ><5S+ 0 0 57 21 75 STARQKTIATTSKSSKSKST
18 18 A D T 3<5S+ 0 0 129 21 65 DADIASANDANDADDAGSGE
19 19 A K T < 5S- 0 0 153 21 70 KkEGDEkEAkEAGAASGEGS
20 20 A G T < 5S+ 0 0 68 18 0 GgGGGGgGGgGGGGGG.G..
21 21 A N < - 0 0 34 18 96 NQHQGNQLFQFFQFFQ.N..
22 22 A G > - 0 0 43 18 0 GGGGGGGGGGGGGGGG.G..
23 23 A F H > S+ 0 0 129 20 67 FYYQGDYYYYYYQYYQYYY.
24 24 A T H >> S+ 0 0 118 20 8 TTTTTTTTTTTTTTTTTST.
25 25 A F H 3> S+ 0 0 118 21 70 FFFFYFFRHFRHFHHFHFHI
26 26 A b H 3X S+ 0 0 0 21 0 CCCCCCCCCCCCCCCCCCCC
27 27 A E H < S+ 0 0 66 21 63 TAATTTATEATETEETETEI
33 33 A D H 3< S+ 0 0 81 21 9 DDDDDDDEDDEDDDDDDDDE
34 34 A a T 3< S+ 0 0 27 21 0 CCCCCCCCCCCCCCCCCCCC
35 35 A S S < S- 0 0 69 21 87 SSGFLLSSTSSTFTTFTLTD
36 36 A V + 0 0 138 21 73 VKMNAAKAAKAADAANAAAC
37 37 A K - 0 0 159 21 43 KKMKKKKKTKKKERRKKKKL
38 38 A D + 0 0 131 21 81 DDEDEVDMLDLLELLDLQLD
39 39 A V - 0 0 132 21 65 VFLVAAFLLFLLVLLVLAFN
40 40 A K - 0 0 184 21 76 KVKGAAVKKVKKAKKAKLKR
41 41 A E - 0 0 193 21 47 EGAAGEAEEAEEGDEGEGEE
42 42 A K - 0 0 163 21 45 KNKKKKQRKQRRKRRNRRRK
43 43 A L + 0 0 148 21 27 LYILLLFILFILLLLLILIL
44 44 A E + 0 0 144 19 64 E EH NPEQPEQHQQSEHEN
45 45 A N - 0 0 150 17 65 N N AKKNKKN NNPKEKS
46 46 A Y - 0 0 193 17 43 Y L FFMMFMM MMMMYLL
47 47 A K - 0 0 195 16 11 K K KKKKKKK KKNK KK
48 48 A P - 0 0 87 6 40 P PA A P
49 49 A K 0 0 162 3 86 K S
50 50 A N 0 0 197 3 0 N N
## 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 13 50 0 0 13 0 0 0 0 0 0 0 25 8 0 0 1.213 40 0.41
2 2 A 0 0 0 0 0 0 0 0 45 0 5 5 0 0 0 0 0 30 0 15 20 0 0 1.305 43 0.44
3 3 A 0 0 0 0 0 0 0 0 14 0 0 24 0 0 0 0 0 29 10 24 21 0 0 1.543 51 0.39
4 4 A 5 5 0 0 0 0 0 5 5 0 0 0 0 0 0 5 24 43 0 10 21 0 0 1.654 55 0.38
5 5 A 0 0 0 0 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.637 21 0.97
6 6 A 10 0 5 0 0 0 0 10 10 0 0 14 0 0 5 43 5 0 0 0 21 0 0 1.748 58 0.23
7 7 A 24 0 0 0 0 0 0 5 5 0 19 14 0 0 5 0 0 10 0 19 21 0 0 1.910 63 0.16
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
9 9 A 0 0 0 0 29 0 71 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.598 19 0.97
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 5 62 19 21 0 0 1.036 34 0.61
11 11 A 0 0 14 0 0 0 0 0 0 5 0 38 0 0 0 0 0 5 14 24 21 0 0 1.555 51 0.28
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
13 13 A 5 0 0 0 0 0 0 0 0 0 0 0 0 24 0 5 43 19 0 5 21 0 0 1.456 48 0.43
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 62 14 5 0 19 21 0 0 1.036 34 0.53
15 15 A 10 5 5 0 0 0 0 0 0 0 0 0 0 0 0 5 5 62 0 10 21 0 0 1.325 44 0.46
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
17 17 A 0 0 5 0 0 0 0 0 10 0 33 24 0 0 5 19 5 0 0 0 21 0 0 1.683 56 0.24
18 18 A 0 0 5 0 0 0 0 10 29 0 10 0 0 0 0 0 0 5 10 33 21 0 0 1.686 56 0.35
19 19 A 0 0 0 0 0 0 0 19 19 0 10 0 0 0 0 24 0 24 0 5 21 3 3 1.684 56 0.29
20 20 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
21 21 A 0 6 0 0 28 0 0 6 0 0 0 0 0 6 0 0 33 0 22 0 18 0 0 1.538 51 0.04
22 22 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
23 23 A 0 0 0 0 10 0 65 5 0 0 0 0 0 0 0 0 15 0 0 5 20 0 0 1.094 36 0.33
24 24 A 0 0 0 0 0 0 0 0 0 0 5 95 0 0 0 0 0 0 0 0 20 0 0 0.199 6 0.91
25 25 A 0 0 5 0 52 0 5 0 0 0 0 0 0 29 10 0 0 0 0 0 21 0 0 1.211 40 0.30
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 95 0 0 21 0 0 0.191 6 0.87
28 28 A 0 0 0 95 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 21 0 0 0.191 6 0.84
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 95 21 0 0 0.191 6 0.96
32 32 A 0 0 5 0 0 0 0 0 19 0 0 48 0 0 0 0 0 29 0 0 21 0 0 1.172 39 0.37
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 86 21 0 0 0.410 13 0.91
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
35 35 A 0 14 0 0 14 0 0 5 0 0 33 29 0 0 0 0 0 0 0 5 21 0 0 1.570 52 0.12
36 36 A 10 0 0 5 0 0 0 0 52 0 0 0 5 0 0 14 0 0 10 5 21 0 0 1.500 50 0.27
37 37 A 0 5 0 5 0 0 0 0 0 0 0 5 0 0 10 71 0 5 0 0 21 0 0 1.044 34 0.57
38 38 A 5 33 0 5 0 0 0 0 0 0 0 0 0 0 0 0 5 14 0 38 21 0 0 1.447 48 0.19
39 39 A 24 38 0 0 19 0 0 0 14 0 0 0 0 0 0 0 0 0 5 0 21 0 0 1.448 48 0.35
40 40 A 14 5 0 0 0 0 0 5 19 0 0 0 0 0 5 52 0 0 0 0 21 0 0 1.367 45 0.23
41 41 A 0 0 0 0 0 0 0 24 19 0 0 0 0 0 0 0 0 52 0 5 21 0 0 1.141 38 0.53
42 42 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 38 43 10 0 10 0 21 0 0 1.179 39 0.54
43 43 A 0 62 24 0 10 0 5 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 1.007 33 0.72
44 44 A 0 0 0 0 0 0 0 0 0 11 5 0 0 16 0 0 21 37 11 0 19 0 0 1.616 53 0.36
45 45 A 0 0 0 0 0 0 0 0 6 6 6 0 0 0 0 35 0 6 41 0 17 0 0 1.400 46 0.35
46 46 A 0 18 0 47 18 0 18 0 0 0 0 0 0 0 0 0 0 0 0 0 17 0 0 1.273 42 0.56
47 47 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 94 0 0 6 0 16 0 0 0.234 7 0.89
48 48 A 0 0 0 0 0 0 0 0 33 67 0 0 0 0 0 0 0 0 0 0 6 0 0 0.637 21 0.59
49 49 A 0 0 0 0 0 0 0 0 0 0 33 0 0 0 0 67 0 0 0 0 3 0 0 0.637 21 0.13
50 50 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 3 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
2 19 43 1 kQg
7 19 43 1 kQg
10 19 43 1 kQg
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