Complet list of 1zue hssp file
Complete list of 1zue.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1ZUE
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 30-MAY-05 1ZUE
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 1ZUE A 1 42 UNP P82140 DLP2_ORNAN 1 42
SEQLENGTH 42
NCHAIN 1 chain(s) in 1ZUE 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 0.98 0.98 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 0 207 3 0 I I
2 2 A X - 0 0 159 2 66 M F
3 3 A F S S- 0 0 196 3 0 F F
4 4 A F - 0 0 130 4 5 FFY
5 5 A E + 0 0 149 4 56 EEG
6 6 A M - 0 0 79 4 72 MMR
7 7 A Q - 0 0 70 4 0 QQQ
8 8 A A B > -a 31 0A 22 4 101 AYP
9 9 A a T 4>S+ 0 0 1 4 0 CCC
10 10 A W T 45S+ 0 0 176 4 67 WWS
11 11 A S T 45S+ 0 0 79 4 106 SSY
12 12 A H T <5S- 0 0 128 4 67 HHY
13 13 A S T 5S+ 0 0 107 4 72 SSD
14 14 A G < - 0 0 24 4 0 GGG
15 15 A V E -B 40 0B 59 4 0 VVV
16 16 A b E +B 39 0B 32 4 0 CCC
17 17 A R E -B 38 0B 102 4 0 RRR
18 18 A D E > -B 37 0B 101 4 0 DDD
19 19 A K T 3 S+ 0 0 113 4 0 KKK
20 20 A S T 3 S+ 0 0 92 4 0 SSS
21 21 A E < - 0 0 63 4 28 EED
22 22 A R S S+ 0 0 249 4 101 RRV
23 23 A N S S+ 0 0 131 4 0 NNN
24 24 A c - 0 0 21 4 55 CNC
25 25 A K - 0 0 151 4 0 KKK
26 26 A P B -C 40 0B 93 4 129 PPY
27 27 A M - 0 0 105 4 50 MMI
28 28 A A S S+ 0 0 58 4 0 AAA
29 29 A W S S+ 0 0 169 4 11 WWF
30 30 A T - 0 0 18 4 0 TTT
31 31 A Y B -a 8 0A 125 4 0 YYY
32 32 A b - 0 0 23 4 0 CCC
33 33 A E S S+ 0 0 158 4 0 EEE
34 34 A N S > S- 0 0 96 4 0 NNN
35 35 A R T 3 S+ 0 0 241 4 67 RRP
36 36 A N T 3 S+ 0 0 99 4 34 NQN
37 37 A Q E < -B 18 0B 72 4 34 QKQ
38 38 A K E -B 17 0B 69 4 39 KKR
39 39 A a E +B 16 0B 11 4 0 CCC
40 40 A c E -BC 15 26B 0 3 0 C C
41 41 A E 0 0 91 3 129 E Y
42 42 A Y 0 0 196 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 50 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.693 23 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 0.44
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 0.27
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 -0.01
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 0.33
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 -0.07
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 0.33
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 0.27
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 -0.01
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 0.44
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 -0.29
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 0.33
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 0.66
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 0.66
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 0.61
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 -0.30
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
//