Complet list of 1z64 hssp file
Complete list of 1z64.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1Z64
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 ANTIMICROBIAL PROTEIN 21-MAR-05 1Z64
COMPND MOL_ID: 1; MOLECULE: PLERUOCIDIN; CHAIN: A; FRAGMENT: RESIDUES 23-47;
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: PSEUDOPLEURONECTES AMERICANUS; ORGANIS
AUTHOR R.T.SYVITSKI,I.BURTON,N.R.MATTATALL,S.E.DOUGLAS,D.L.JAKEMAN
DBREF 1Z64 A 1 25 UNP P81941 PLE1_PSEAM 23 47
SEQLENGTH 25
NCHAIN 1 chain(s) in 1Z64 data set
NALIGN 5
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 : PLE1_PSEAM 2LS9 1.00 1.00 1 25 23 47 25 0 0 68 P81941 Pleurocidin OS=Pseudopleuronectes americanus GN=ple1 PE=1 SV=2
2 : PLE2_PSEAM 1.00 1.00 1 25 23 47 25 0 0 68 Q90ZY0 Pleurocidin OS=Pseudopleuronectes americanus GN=ple2 PE=1 SV=1
3 : Q7SZH1_LIMFE 0.83 0.88 2 25 24 47 24 0 0 59 Q7SZH1 Pleurocidin-like peptide YT2 (Fragment) OS=Limanda ferruginea GN=ple PE=4 SV=1
4 : Q0H3B3_LIMLI 0.76 0.80 1 25 23 47 25 0 0 60 Q0H3B3 Pleurocidin prepropolypeptide (Fragment) OS=Limanda limanda PE=4 SV=1
5 : PLE4_PSEAM 0.60 0.80 1 25 23 47 25 0 0 68 Q90ZX8 Pleurocidin-like peptide WF4 OS=Pseudopleuronectes americanus GN=ple4 PE=3 SV=1
## ALIGNMENTS 1 - 5
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G > 0 0 84 5 0 GG GG
2 2 A W H > + 0 0 215 6 0 WWWWW
3 3 A G H >>S+ 0 0 48 6 40 GGGKG
4 4 A S I >>S+ 0 0 63 6 55 SSKKS
5 5 A F I X>S+ 0 0 154 6 61 FFWWI
6 6 A F I X5S+ 0 0 136 6 0 FFFFF
7 7 A K I X>S+ 0 0 125 6 0 KKKKK
8 8 A K I XS+ 0 0 78 6 16 VVVVI
17 17 A G I X>S+ 0 0 28 6 0 GGGGG
18 18 A K I <>S+ 0 0 111 6 58 KKKKH
19 19 A A I <>S+ 0 0 38 6 0 AAAAA
20 20 A A I <5S+ 0 0 47 6 0 AAAAA
21 21 A L I X