Complet list of 1zuf hssp file
Complete list of 1zuf.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1ZUF
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 2014-05-14
HEADER TOXIN 31-MAY-05 1ZUF
COMPND MOL_ID: 1; MOLECULE: DEFENSIN-LIKE PEPTIDE 2/4; CHAIN: A; SYNONYM: DLP
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: CHEMICALLY SYNTHESIZED
AUTHOR A.M.TORRES,C.TSAMPAZI,D.P.GERAGHTY,P.S.BANSAL,P.F.ALEWOOD, P.W.KUCHEL
DBREF 1ZUF A 1 42 UNP P82140 DLP2_ORNAN 1 42
SEQLENGTH 42
NCHAIN 1 chain(s) in 1ZUF data set
NALIGN 3
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 : DLP2_ORNAN 1D6B 1.00 1.00 1 42 25 66 42 0 0 66 P82140 Defensin-like peptide 2/4 OS=Ornithorhynchus anatinus PE=1 SV=2
2 : DLP3_ORNAN 0.89 0.94 4 39 1 36 36 0 0 38 P82141 Defensin-like peptide 3 OS=Ornithorhynchus anatinus PE=1 SV=1
3 : DLPA_ORNAN 0.60 0.71 1 42 25 66 42 0 0 66 P0C8B2 Ornithorhynchus venom defensin-like peptide A OS=Ornithorhynchus anatinus PE=2 SV=1
## ALIGNMENTS 1 - 3
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A I 0 0 155 3 0 I I
2 2 A M - 0 0 171 3 66 M F
3 3 A F S S+ 0 0 172 3 0 F F
4 4 A F - 0 0 114 4 5 FFY
5 5 A E + 0 0 182 4 56 EEG
6 6 A M S S+ 0 0 88 4 74 MMR
7 7 A Q E -a 30 0A 65 4 0 QQQ
8 8 A A E -a 31 0A 9 4 102 AYP
9 9 A a > + 0 0 17 4 0 CCC
10 10 A W T 4 S+ 0 0 190 4 68 WWS
11 11 A S T 4 S+ 0 0 121 4 108 SSY
12 12 A H T 4 S- 0 0 83 4 68 HHY
13 13 A S < + 0 0 68 4 74 SSD
14 14 A G - 0 0 23 4 0 GGG
15 15 A V E -B 40 0B 48 4 0 VVV
16 16 A b E +B 39 0B 56 4 0 CCC
17 17 A R E -B 38 0B 129 4 0 RRR
18 18 A D E > -B 37 0B 79 4 0 DDD
19 19 A K T 3 S+ 0 0 77 4 0 KKK
20 20 A S T 3 S+ 0 0 109 4 0 SSS
21 21 A E X - 0 0 31 4 28 EED
22 22 A R T 3 S+ 0 0 241 4 102 RRV
23 23 A N T 3 S+ 0 0 107 4 0 NNN
24 24 A c < - 0 0 45 4 56 CNC
25 25 A K - 0 0 99 4 0 KKK
26 26 A P - 0 0 87 4 131 PPY
27 27 A M - 0 0 84 4 51 MMI
28 28 A A - 0 0 21 4 0 AAA
29 29 A W S S+ 0 0 140 4 11 WWF
30 30 A T E -a 7 0A 4 4 0 TTT
31 31 A Y E -a 8 0A 48 4 0 YYY
32 32 A b - 0 0 34 4 0 CCC
33 33 A E S S+ 0 0 148 4 0 EEE
34 34 A N S > S- 0 0 103 4 0 NNN
35 35 A R T 3 S+ 0 0 156 4 68 RRP
36 36 A N T 3 S+ 0 0 99 4 34 NQN
37 37 A Q E < -B 18 0B 51 4 34 QKQ
38 38 A K E -B 17 0B 47 4 39 KKR
39 39 A a E -B 16 0B 1 4 0 CCC
40 40 A c E -B 15 0B 4 3 0 C C
41 41 A E 0 0 63 3 133 E Y
42 42 A Y 0 0 176 3 0 Y Y
## 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 0 100 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
2 2 A 0 0 0 67 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.33
3 3 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
4 4 A 0 0 0 0 75 0 25 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.94
5 5 A 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 0 0 75 0 0 4 0 0 0.562 18 0.43
6 6 A 0 0 0 75 0 0 0 0 0 0 0 0 0 0 25 0 0 0 0 0 4 0 0 0.562 18 0.26
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 4 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 25 0 50 25 0 0 0 0 0 0 0 0 0 0 4 0 0 1.040 34 -0.03
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 75 0 0 0 0 25 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.32
11 11 A 0 0 0 0 0 0 25 0 0 0 75 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 -0.08
12 12 A 0 0 0 0 0 0 25 0 0 0 0 0 0 75 0 0 0 0 0 0 4 0 0 0.562 18 0.32
13 13 A 0 0 0 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 0 25 4 0 0 0.562 18 0.26
14 14 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
15 15 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 4 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 4 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 4 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 75 0 25 4 0 0 0.562 18 0.72
22 22 A 25 0 0 0 0 0 0 0 0 0 0 0 0 0 75 0 0 0 0 0 4 0 0 0.562 18 -0.03
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 4 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 75 0 0 0 0 0 25 0 4 0 0 0.562 18 0.43
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 4 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 25 0 0 75 0 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 -0.31
27 27 A 0 0 25 75 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.49
28 28 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
29 29 A 0 0 0 0 25 75 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.89
30 30 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 4 0 0 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 4 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 0 0 25 0 0 0 0 75 0 0 0 0 0 4 0 0 0.562 18 0.32
36 36 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 75 0 4 0 0 0.562 18 0.65
37 37 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 75 0 0 0 4 0 0 0.562 18 0.65
38 38 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 75 0 0 0 0 4 0 0 0.562 18 0.60
39 39 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
41 41 A 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 67 0 0 3 0 0 0.637 21 -0.33
42 42 A 0 0 0 0 0 0 100 0 0 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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