Complet list of 1p00 hssp file
Complete list of 1p00.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1P00
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 1P00
COMPND MOL_ID: 1; MOLECULE: DEFENSIN ARD1; CHAIN: A; ENGINEERED: YES; MUTATIO
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 1P00 A 1 44 UNP P84156 P84156_9NEOP 1 44
SEQLENGTH 44
NCHAIN 1 chain(s) in 1P00 data set
NALIGN 13
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 0.98 0.98 1 44 1 44 44 0 0 44 P84156 Defensin ARD1 OS=Archaeoprepona demophon PE=1 SV=1
2 : D3G9G5_HELVI 0.93 0.98 1 44 30 73 44 0 0 73 D3G9G5 Heliomicin OS=Heliothis virescens PE=4 SV=1
3 : DEFN_HELVI 1I2U 0.93 0.98 1 44 1 44 44 0 0 44 P81544 Defensin heliomicin OS=Heliothis virescens PE=1 SV=1
4 : E5D602_HELAM 0.93 0.98 1 44 30 73 44 0 0 73 E5D602 Galiomicin OS=Helicoverpa armigera GN=Gali PE=4 SV=1
5 : DEF2_GALME 0.91 0.93 1 43 1 43 43 0 0 44 P85215 Defensin-like peptide OS=Galleria mellonella PE=1 SV=1
6 : E5LBK2_MANSE 0.91 0.95 1 44 27 70 44 0 0 70 E5LBK2 Defensin 2 OS=Manduca sexta PE=4 SV=1
7 : S5TR00_HELZE 0.91 0.95 1 44 25 68 44 0 0 68 S5TR00 Galiomicin (Fragment) OS=Helicoverpa zea GN=gali PE=4 SV=1
8 : V9MG79_COTVE 0.91 0.93 1 44 30 73 44 0 0 73 V9MG79 Defensin 3 OS=Cotesia vestalis GN=def-3 PE=4 SV=1
9 : DEF1_GALME 0.88 0.91 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 : B4PGP7_DROYA 0.42 0.60 1 43 30 67 43 2 5 69 B4PGP7 GE20689 OS=Drosophila yakuba GN=Dyak\GE20689 PE=4 SV=1
13 : R4H5E1_MESEU 0.42 0.53 1 43 13 53 45 3 6 72 R4H5E1 Sodium channel toxin 17 (Fragment) OS=Mesobuthus eupeus PE=2 SV=1
## ALIGNMENTS 1 - 13
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A D 0 0 99 13 21 DDDDDDDDD DGD
2 2 A K E -A 42 0A 99 13 27 KKKKKKKKT VKK
3 3 A L E +A 41 0A 67 13 32 LLLLLLLLL LFY
4 4 A I E - 0 0A 42 14 67 IIIIIIIIIIIRT
5 5 A G E -A 40 0A 2 14 0 GGGGGGGGGGGGG
6 6 A S E -Ab 39 14A 13 14 17 SSSSSSSSSSSSC
7 7 A a S S+ 0 0 21 14 45 CCCCCCCCCCCCK
8 8 A V S > S- 0 0 50 13 0 VVVVVVVVVVV.V
9 9 A W T 3 S+ 0 0 217 13 0 WWWWWWWWWWW.W
10 10 A G T 3 S+ 0 0 63 13 39 GGGGGGGGGGG.C
11 11 A A S X S- 0 0 36 14 78 AAAAAAAAAGGYV
12 12 A V T 3 S+ 0 0 149 14 33 VVVVTVVTTVVVI
13 13 A N T 3 S+ 0 0 71 14 50 NNNNNDNNNNNWN
14 14 A Y B < -b 6 0A 107 14 59 YYYYYYYYYYYHN
15 15 A T - 0 0 14 14 66 TTTTTTTTTVTKE
16 16 A S S S- 0 0 97 14 31 SSSSSSSSSSSKS
17 17 A N > - 0 0 88 13 53 NDDDDNDNDNDK.
18 18 A b H > S+ 0 0 12 14 0 CCCCCCCCCCCCC
19 19 A R H > S+ 0 0 162 14 67 NNNNNNNNNLLRN
20 20 A A H > S+ 0 0 40 14 58 AGGGAAGAADKEG
21 21 A E H X S+ 0 0 27 14 40 EEEEEEEEEEEIE
22 22 A c H <>S+ 0 0 0 14 0 CCCCCCCCCCCCC
23 23 A K H ><5S+ 0 0 115 14 38 KKKKKVKKKKKQK
24 24 A R H 3<5S+ 0 0 191 14 0 RRRRRRRRRRRRR
25 25 A R T 3<5S- 0 0 152 14 36 RRRRRRRRRRRER
26 26 A G T < 5S+ 0 0 72 14 0 GGGGGGGGGGGGG
27 27 A Y < - 0 0 59 13 68 YYYYYFYFYYYR.
28 28 A K S S- 0 0 166 13 41 KKKKKKKKKKKT.
29 29 A G E -C 43 0A 2 13 0 GGGGGGGGGGGG.
30 30 A G E -C 42 0A 10 14 0 GGGGGGGGGGGGG
31 31 A H E -C 41 0A 67 14 25 HHHHHHHHHHHHY
32 32 A a E +C 40 0A 54 14 10 CCCCCCCCCCCCY
33 33 A G E > +C 39 0A 19 13 0 GGGGGGGGGGG.g
34 34 A S T > 5S+ 0 0 81 13 57 SSSSSSSSSSS.y
35 35 A F T 3 5S- 0 0 177 14 57 FFFFFFFFFFASF
36 36 A A T 3 5S- 0 0 75 14 94 AAAAWAAWLALPW
37 37 A N T < 5S+ 0 0 99 14 50 NNNNNNNNNNNSK
38 38 A V < + 0 0 39 14 45 VVVVVVVVVNVLL
39 39 A N E -AC 6 33A 47 14 65 NNNNNNNNNINKA
40 40 A b E -AC 5 32A 0 14 0 CCCCCCCCCCCCC
41 41 A W E -AC 3 31A 86 14 4 WWWWWWWWWWWWF
42 42 A c E -AC 2 30A 0 14 8 CCCCCCGCCCCCC
43 43 A E E C 0 29A 79 14 17 EEEEEEEEEEEEQ
44 44 A T 0 0 117 9 0 TTTT TTT 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 8 0 0 0 0 0 0 0 0 0 0 0 92 13 0 0 0.271 9 0.79
2 2 A 8 0 0 0 0 0 0 0 0 0 0 8 0 0 0 85 0 0 0 0 13 0 0 0.536 17 0.72
3 3 A 0 85 0 0 8 0 8 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0.536 17 0.68
4 4 A 0 0 86 0 0 0 0 0 0 0 0 7 0 0 7 0 0 0 0 0 14 0 0 0.509 16 0.32
5 5 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 0 93 0 7 0 0 0 0 0 0 0 14 0 0 0.257 8 0.83
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 93 0 0 7 0 0 0 0 14 1 0 0.257 8 0.55
8 8 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 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 13 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 92 0 0 0 0 8 0 0 0 0 0 0 0 13 0 0 0.271 9 0.61
11 11 A 7 0 0 0 0 0 7 14 71 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.895 29 0.22
12 12 A 71 0 7 0 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 0 14 0 0 0.759 25 0.66
13 13 A 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 86 7 14 0 0 0.509 16 0.50
14 14 A 0 0 0 0 0 0 86 0 0 0 0 0 0 7 0 0 0 0 7 0 14 0 0 0.509 16 0.41
15 15 A 7 0 0 0 0 0 0 0 0 0 0 79 0 0 0 7 0 7 0 0 14 0 0 0.755 25 0.34
16 16 A 0 0 0 0 0 0 0 0 0 0 93 0 0 0 0 7 0 0 0 0 14 1 0 0.257 8 0.69
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 38 54 13 0 0 0.898 29 0.46
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
19 19 A 0 14 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0 71 0 14 0 0 0.796 26 0.33
20 20 A 0 0 0 0 0 0 0 36 43 0 0 0 0 0 0 7 0 7 0 7 14 0 0 1.296 43 0.41
21 21 A 0 0 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 93 0 0 14 0 0 0.257 8 0.59
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
23 23 A 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 86 7 0 0 0 14 0 0 0.509 16 0.61
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 14 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 93 0 0 7 0 0 14 0 0 0.257 8 0.64
26 26 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 14 1 0 0.000 0 1.00
27 27 A 0 0 0 0 15 0 77 0 0 0 0 0 0 0 8 0 0 0 0 0 13 0 0 0.687 22 0.32
28 28 A 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 92 0 0 0 0 13 0 0 0.271 9 0.58
29 29 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 7 0 0 0 0 0 0 93 0 0 0 0 0 0 14 0 0 0.257 8 0.74
32 32 A 0 0 0 0 0 0 7 0 0 0 0 0 93 0 0 0 0 0 0 0 14 1 0 0.257 8 0.89
33 33 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 13 0 1 0.000 0 1.00
34 34 A 0 0 0 0 0 0 8 0 0 0 92 0 0 0 0 0 0 0 0 0 13 0 0 0.271 9 0.43
35 35 A 0 0 0 0 86 0 0 0 7 0 7 0 0 0 0 0 0 0 0 0 14 0 0 0.509 16 0.43
36 36 A 0 14 0 0 0 21 0 0 57 7 0 0 0 0 0 0 0 0 0 0 14 0 0 1.116 37 0.06
37 37 A 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 7 0 0 86 0 14 0 0 0.509 16 0.50
38 38 A 79 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 14 0 0 0.656 21 0.55
39 39 A 0 0 7 0 0 0 0 0 7 0 0 0 0 0 0 7 0 0 79 0 14 0 0 0.755 25 0.34
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
41 41 A 0 0 0 0 7 93 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.257 8 0.96
42 42 A 0 0 0 0 0 0 0 7 0 0 0 0 93 0 0 0 0 0 0 0 14 0 0 0.257 8 0.91
43 43 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 93 0 0 14 0 0 0.257 8 0.83
44 44 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 9 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
13 30 42 2 gYCy
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