Complet list of 1ozz hssp file
Complete list of 1ozz.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1OZZ
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 2014-05-05
HEADER ANTIFUNGAL PROTEIN 10-APR-03 1OZZ
COMPND MOL_ID: 1; MOLECULE: DEFENSIN ARD1; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: ARCHAEOPREPONA DEMOPHON; ORGANISM_TAXI
AUTHOR C.LANDON,M.GUENNEUGUES,F.BARBAULT,M.LEGRAIN,L.MENIN, V.SCHOTT,F.VOVELL
DBREF 1OZZ A 1 44 UNP P84156 P84156_9NEOP 1 44
SEQLENGTH 44
NCHAIN 1 chain(s) in 1OZZ data set
NALIGN 21
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 : DEFN_ARCDE 1P00 1.00 1.00 1 44 1 44 44 0 0 44 P84156 Defensin ARD1 OS=Archaeoprepona demophon PE=1 SV=1
2 : D3G9G5_HELVI 0.95 1.00 1 44 30 73 44 0 0 73 D3G9G5 Heliomicin OS=Heliothis virescens PE=4 SV=1
3 : DEFN_HELVI 1I2U 0.95 1.00 1 44 1 44 44 0 0 44 P81544 Defensin heliomicin OS=Heliothis virescens PE=1 SV=1
4 : E5D602_HELAM 0.95 1.00 1 44 30 73 44 0 0 73 E5D602 Galiomicin OS=Helicoverpa armigera GN=Gali PE=4 SV=1
5 : DEF2_GALME 0.93 0.95 1 43 1 43 43 0 0 44 P85215 Defensin-like peptide OS=Galleria mellonella PE=1 SV=1
6 : E5LBK2_MANSE 0.93 0.98 1 44 27 70 44 0 0 70 E5LBK2 Defensin 2 OS=Manduca sexta PE=4 SV=1
7 : S5TR00_HELZE 0.93 0.98 1 44 25 68 44 0 0 68 S5TR00 Galiomicin (Fragment) OS=Helicoverpa zea GN=gali PE=4 SV=1
8 : V9MG79_COTVE 0.93 0.95 1 44 30 73 44 0 0 73 V9MG79 Defensin 3 OS=Cotesia vestalis GN=def-3 PE=4 SV=1
9 : DEF1_GALME 0.91 0.93 1 43 30 72 43 0 0 72 P85213 Defensin OS=Galleria mellonella PE=1 SV=2
10 : V9MMW2_COTVE 0.85 0.88 4 43 33 72 40 0 0 73 V9MMW2 Defensin 2 OS=Cotesia vestalis GN=def-2 PE=4 SV=1
11 : R4IXW7_BEMTA 0.84 0.89 1 44 30 73 44 0 0 75 R4IXW7 Defensin OS=Bemisia tabaci GN=Def PE=4 SV=1
12 : E4VP32_MESEU 0.44 0.58 1 43 27 67 43 2 2 86 E4VP32 Venom sodium channel toxin-5 OS=Mesobuthus eupeus PE=3 SV=1
13 : R4H5E1_MESEU 0.44 0.58 1 43 13 53 43 2 2 72 R4H5E1 Sodium channel toxin 17 (Fragment) OS=Mesobuthus eupeus PE=2 SV=1
14 : E4VP18_MESEU 0.42 0.56 1 43 27 67 43 2 2 86 E4VP18 Venom sodium channel toxin-2 OS=Mesobuthus eupeus PE=3 SV=1
15 : E4VP47_MESEU 0.42 0.56 1 43 27 67 43 2 2 86 E4VP47 Venom sodium channel toxin-7 OS=Mesobuthus eupeus PE=3 SV=1
16 : F1CIV8_HOTJU 0.42 0.58 1 43 27 67 43 2 2 86 F1CIV8 Beta-buthitoxin-Hj2a OS=Hottentotta judaicus PE=3 SV=1
17 : R4H619_MESEU 0.42 0.56 1 43 13 53 43 2 2 72 R4H619 Sodium channel toxin 15a (Fragment) OS=Mesobuthus eupeus PE=2 SV=1
18 : SCAS_MESMA 0.42 0.56 1 43 26 66 43 2 2 85 Q9UAC9 Beta-toxin BmKAS OS=Mesobuthus martensii PE=1 SV=1
19 : SCXN6_MESEU 0.42 0.56 1 43 7 47 43 2 2 66 P86406 Neurotoxin MeuNaTx-6 OS=Mesobuthus eupeus PE=1 SV=1
20 : I6MRK9_CAERE 0.40 0.62 1 44 17 54 45 3 8 54 I6MRK9 Mycin-7 (Precursor) OS=Caenorhabditis remanei PE=2 SV=1
21 : R4H564_MESEU 0.40 0.53 1 43 13 53 45 3 6 72 R4H564 Sodium channel toxin 16 (Fragment) OS=Mesobuthus eupeus PE=2 SV=1
## ALIGNMENTS 1 - 21
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A D 0 0 106 21 14 DDDDDDDDD DDDDDNDDDGD
2 2 A K E -A 42 0A 99 21 18 KKKKKKKKT VKKKKKKKKKK
3 3 A L E +A 41 0A 72 21 65 LLLLLLLLL LYYYYAYYYFY
4 4 A I E + 0 0A 40 22 79 IIIIIIIIIIITTTTTTTTKA
5 5 A G E S- 0 0A 5 22 0 GGGGGGGGGGGGGGGGGGGGG
6 6 A S E -Ab 39 14A 13 22 50 SSSSSSSSSSSCCCCCCCCPC
7 7 A a S S+ 0 0 29 22 111 CCCCCCCCCCCEKKKKKKKCK
8 8 A V S > S- 0 0 64 21 0 VVVVVVVVVVVVVVVVVVV.V
9 9 A W T 3 S+ 0 0 211 21 0 WWWWWWWWWWWWWWWWWWW.W
10 10 A G T 3 S+ 0 0 69 21 72 GGGGGGGGGGGCCCCCCCC.C
11 11 A A S < S- 0 0 40 21 75 AAAAAAAAAGGVVVVVVVV.V
12 12 A V S S+ 0 0 115 21 37 VVVVTVVTTVVIIIIVIII.I
13 13 A N S S- 0 0 111 21 5 NNNNNDNNNNNNNNNNNNN.N
14 14 A Y B +b 6 0A 102 22 84 YYYYYYYYYYYNNNNNNNNYN
15 15 A T + 0 0 18 22 78 TTTTTTTTTVTEEEEAEEEsE
16 16 A S S S+ 0 0 76 13 0 SSSSSSSSSSS........s.
17 17 A N > + 0 0 120 22 70 NDDDDNDNDNDSSSSSSSSNS
18 18 A b H > S+ 0 0 5 22 0 CCCCCCCCCCCCCCCCCCCCC
19 19 A N H > S+ 0 0 80 22 23 NNNNNNNNNLLNNNNNNNNNN
20 20 A A H > S+ 0 0 39 22 59 AGGGAAGAADKGGSSSSSSGS
21 21 A E H X S+ 0 0 36 22 25 EEEEEEEEEEEEEEESEEEVE
22 22 A c H X>S+ 0 0 0 22 0 CCCCCCCCCCCCCCCCCCCCC
23 23 A K H <5S+ 0 0 116 22 16 KKKKKVKKKKKKKKKKKKKRK
24 24 A R H <5S+ 0 0 161 22 88 RRRRRRRRRRRRRIILIIIDI
25 25 A R H <5S- 0 0 105 22 15 RRRRRRRRRRRRRRRRRRRER
26 26 A G T <5S+ 0 0 58 22 57 GGGGGGGGGGGGGRRGRGRGR
27 27 A Y S S- 0 0 70 15 89 SSSSSSSSSSS.......YHy
35 35 A F G > S- 0 0 171 22 14 FFFFFFFFFFAFFFFFFFFWF
36 36 A A G 3 S- 0 0 74 22 99 AAAAWAAWLALWWWWWWWWSW
37 37 A N G < S+ 0 0 96 22 65 NNNNNNNNNNNKKKKKKKKGK
38 38 A V < + 0 0 37 22 55 VVVVVVVVVNVLLLLLLLLAL
39 39 A N E S-AC 6 33A 38 21 77 NNNNNNNNNINAAAAAAAA.A
40 40 A b E - C 0 32A 0 22 0 CCCCCCCCCCCCCCCCCCCCC
41 41 A W E -AC 3 31A 66 22 17 WWWWWWWWWWWFFYYYYFYWY
42 42 A c E -AC 2 30A 0 22 6 CCCCCCGCCCCCCCCCCCCCC
43 43 A E E C 0 29A 85 22 19 EEEEEEEEEEEQQEEEEQEDE
44 44 A T 0 0 123 10 0 TTTT TTT T T
## 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 5 0 0 0 0 0 0 0 0 0 0 5 90 21 0 0 0.381 12 0.86
2 2 A 5 0 0 0 0 0 0 0 0 0 0 5 0 0 0 90 0 0 0 0 21 0 0 0.381 12 0.81
3 3 A 0 52 0 0 5 0 38 0 5 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.996 33 0.34
4 4 A 0 0 55 0 0 0 0 0 5 0 0 36 0 0 0 5 0 0 0 0 22 0 0 0.979 32 0.21
5 5 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 22 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 5 55 0 41 0 0 0 0 0 0 0 22 0 0 0.837 27 0.49
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 59 0 0 36 0 5 0 0 22 1 0 0.819 27 -0.12
8 8 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 57 0 0 0 0 43 0 0 0 0 0 0 0 21 0 0 0.683 22 0.27
11 11 A 43 0 0 0 0 0 0 10 48 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.940 31 0.25
12 12 A 48 0 38 0 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 0 21 0 0 0.999 33 0.63
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 95 5 21 0 0 0.191 6 0.95
14 14 A 0 0 0 0 0 0 59 0 0 0 0 0 0 0 0 0 0 0 41 0 22 0 0 0.677 22 0.16
15 15 A 5 0 0 0 0 0 0 0 5 0 5 50 0 0 0 0 0 36 0 0 22 9 1 1.136 37 0.21
16 16 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 13 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 41 0 0 0 0 0 0 0 27 32 22 0 0 1.084 36 0.29
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 22 0 0 0.000 0 1.00
19 19 A 0 9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 91 0 22 0 0 0.305 10 0.77
20 20 A 0 0 0 0 0 0 0 32 27 0 32 0 0 0 0 5 0 0 0 5 22 0 0 1.364 45 0.40
21 21 A 5 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 91 0 0 22 0 0 0.368 12 0.74
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 22 0 0 0.000 0 1.00
23 23 A 5 0 0 0 0 0 0 0 0 0 0 0 0 0 5 91 0 0 0 0 22 0 0 0.368 12 0.83
24 24 A 0 5 27 0 0 0 0 0 0 0 0 0 0 0 64 0 0 0 0 5 22 0 0 0.923 30 0.12
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 95 0 0 5 0 0 22 0 0 0.185 6 0.85
26 26 A 0 0 0 0 0 0 0 77 0 0 0 0 0 0 23 0 0 0 0 0 22 1 0 0.536 17 0.42
27 27 A 0 0 0 0 10 0 48 38 0 0 0 0 0 5 0 0 0 0 0 0 21 0 0 1.090 36 -0.19
28 28 A 0 0 0 0 0 0 14 0 0 0 0 0 0 0 0 62 0 0 24 0 21 0 0 0.917 30 0.20
29 29 A 0 0 0 0 0 0 38 57 0 0 5 0 0 0 0 0 0 0 0 0 21 0 0 0.832 27 -0.18
30 30 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 22 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 36 0 0 0 0 0 0 59 0 0 0 0 5 0 22 0 0 0.819 27 0.36
32 32 A 0 0 0 0 0 0 5 0 0 0 0 0 95 0 0 0 0 0 0 0 22 1 0 0.185 6 0.97
33 33 A 0 0 0 0 0 0 33 62 0 0 5 0 0 0 0 0 0 0 0 0 21 7 1 0.808 26 -0.06
34 34 A 0 0 0 0 0 0 13 0 0 0 80 0 0 7 0 0 0 0 0 0 15 0 0 0.628 20 0.10
35 35 A 0 0 0 0 91 5 0 0 5 0 0 0 0 0 0 0 0 0 0 0 22 0 0 0.368 12 0.85
36 36 A 0 9 0 0 0 50 0 0 36 0 5 0 0 0 0 0 0 0 0 0 22 0 0 1.073 35 0.00
37 37 A 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 41 0 0 55 0 22 0 0 0.837 27 0.34
38 38 A 50 41 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 0 5 0 22 1 0 0.993 33 0.44
39 39 A 0 0 5 0 0 0 0 0 43 0 0 0 0 0 0 0 0 0 52 0 21 0 0 0.847 28 0.23
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 22 0 0 0.000 0 1.00
41 41 A 0 0 0 0 14 59 27 0 0 0 0 0 0 0 0 0 0 0 0 0 22 0 0 0.937 31 0.82
42 42 A 0 0 0 0 0 0 0 5 0 0 0 0 95 0 0 0 0 0 0 0 22 0 0 0.185 6 0.93
43 43 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 82 0 5 22 0 0 0.576 19 0.80
44 44 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 10 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
20 10 26 1 sDs
21 30 42 2 gYCy
//