Complet list of 1xc0 hssp file
Complete list of 1xc0.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1XC0
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 2014-05-12
HEADER SIGNALING PROTEIN 31-AUG-04 1XC0
COMPND MOL_ID: 1; MOLECULE: PARDAXIN P-4; CHAIN: A; SYNONYM: PA4; ENGINEERED:
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: PARDAXINS NATURALLY OCCUR IN
AUTHOR F.PORCELLI,B.BUCK,D.-K.LEE,K.J.HALLOCK,A.RAMAMOORTHY, G.VEGLIA
DBREF 1XC0 A 1 33 UNP P81861 PAP4_PARMA 1 33
SEQLENGTH 33
NCHAIN 1 chain(s) in 1XC0 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 : PAP4_PARMA 2KNS 1.00 1.00 1 33 1 33 33 0 0 33 P81861 Pardaxin P-4 OS=Pardachirus marmoratus PE=1 SV=1
2 : PAP1_PARPV 0.97 0.97 1 33 1 33 33 0 0 33 P81865 Pardaxin P-1 OS=Pardachirus pavoninus PE=1 SV=1
3 : PAP2_PARPV 0.97 1.00 1 33 1 33 33 0 0 33 P23067 Pardaxin P-2 OS=Pardachirus pavoninus PE=1 SV=1
4 : PAP5_PARMA 0.97 1.00 1 33 1 33 33 0 0 33 P81862 Pardaxin P-5 OS=Pardachirus marmoratus PE=1 SV=1
5 : PAP3_PARPV 0.94 0.97 1 33 1 33 33 0 0 33 P81866 Pardaxin P-3 OS=Pardachirus pavoninus PE=1 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 0 104 6 0 GGGGG
2 2 A F - 0 0 172 6 0 FFFFF
3 3 A F S S- 0 0 117 6 0 FFFFF
4 4 A A S S+ 0 0 65 6 0 AAAAA
5 5 A L S >> S+ 0 0 70 6 9 LLLLF
6 6 A I H 3> S+ 0 0 29 6 0 IIIII
7 7 A P H 34 S+ 0 0 58 6 0 PPPPP
8 8 A K H X4 S+ 0 0 112 6 0 KKKKK
9 9 A I H >< S+ 0 0 109 6 0 IIIII
10 10 A I T 3<>S+ 0 0 49 6 0 IIIII
11 11 A S I X >S+ 0 0 59 6 0 SSSSS
12 12 A S I < 5S+ 0 0 91 6 0 SSSSS
13 13 A P I 3 5S+ 0 0 74 6 0 PPPPP
14 14 A L I X>5S+ 0 0 81 6 19 LLILL
15 15 A F I 3> S+ 0 0 75 6 0 TTTTT
18 18 A L H X S+ 0 0 87 6 0 LLLLL
19 19 A L H X S+ 0 0 83 6 0 LLLLL
20 20 A S H X S+ 0 0 72 6 0 SSSSS
21 21 A A H X S+ 0 0 46 6 0 AAAAA
22 22 A V H X>S+ 0 0 51 6 0 VVVVV
23 23 A G H <5S+ 0 0 35 6 0 GGGGG
24 24 A S H <>S+ 0 0 68 6 0 SSSSS
25 25 A A H <5S+ 0 0 47 6 0 AAAAA
26 26 A L T <>S+ 0 0 131 6 0 LLLLL
27 27 A S T 5S+ 0 0 75 6 0 SSSSS
29 29 A S T 4