Complet list of 2fqc hssp file
Complete list of 2fqc.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2FQC
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 2014-05-19
HEADER TOXIN 18-JAN-06 2FQC
COMPND MOL_ID: 1; MOLECULE: CONOTOXIN PL14A; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: CHEMICALLY SYNTHESIZED. THIS
AUTHOR D.J.CRAIK,N.L.DALY
SEQLENGTH 25
NCHAIN 1 chain(s) in 2FQC data set
NALIGN 7
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 : CJEA_CONPO 2FQC 1.00 1.00 1 25 40 64 25 0 0 76 Q0N4U8 Alpha/kappa-conotoxin pl14a OS=Conus planorbis PE=1 SV=1
2 : F2VR30_CONVT 0.96 0.96 1 25 40 64 25 0 0 76 F2VR30 J-superfamily conotoxin Vt14.2 OS=Conus vitulinus PE=4 SV=1
3 : F2VR31_CONVT 0.92 0.96 1 25 40 64 25 0 0 76 F2VR31 J-superfamily conotoxin Vt14.7 OS=Conus vitulinus PE=4 SV=1
4 : CJE1_CONFR 0.67 0.88 2 25 41 64 24 0 0 76 Q0N4U4 Alpha/kappa-conotoxin-like fe14.1 OS=Conus ferrugineus PE=2 SV=1
5 : CJE2_CONPO 0.67 0.75 2 25 41 64 24 0 0 68 Q0N4U6 Alpha/kappa-conotoxin-like pl14.2 (Fragment) OS=Conus planorbis PE=2 SV=1
6 : CJE1_CONPO 0.65 0.78 2 24 41 63 23 0 0 76 Q0N4U7 Alpha/kappa-conotoxin-like pl14.1 OS=Conus planorbis PE=2 SV=1
7 : CJE3_CONPO 0.61 0.74 2 24 41 63 23 0 0 76 Q0N4U5 Alpha/kappa-conotoxin-like pl14.3 OS=Conus planorbis PE=2 SV=1
## ALIGNMENTS 1 - 7
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A F 0 0 221 4 0 FFF
2 2 A P - 0 0 104 8 0 PPPPPPP
3 3 A R - 0 0 152 8 97 RRRGGGG
4 4 A P >> - 0 0 47 8 59 PPPSSSS
5 5 A R H 3> S+ 0 0 210 8 102 RRRTAAA
6 6 A I H 3> S+ 0 0 85 8 0 IIIIIII
7 7 A a H <> S+ 0 0 9 8 0 CCCCCCC
8 8 A N H X S+ 0 0 74 8 21 NNNKNNN
9 9 A L H X S+ 0 0 83 8 10 LLLMMMM
10 10 A A H X>S+ 0 0 1 8 0 AAAAAAA
11 11 A b H <5S+ 0 0 22 8 0 CCCCCCC
12 12 A R H <5S+ 0 0 181 8 0 RRRRRRR
13 13 A A H <5S- 0 0 52 8 89 AATTLLL
14 14 A G T ><5S+ 0 0 27 8 35 GGGGEGE
15 15 A I G >>< + 0 0 54 8 106 IIINHQH
16 16 A G G 34 S+ 0 0 0 8 0 GGGGGGG
17 17 A H G <4 S+ 0 0 174 8 36 HYYHHHH
18 18 A K T <4 S+ 0 0 142 8 79 KKKKLML
19 19 A Y >< - 0 0 81 8 0 YYYYYYY
20 20 A P G > S+ 0 0 100 8 0 PPPPPPP
21 21 A F G 3 S+ 0 0 141 8 0 FFFFFFF
22 22 A a G < S+ 0 0 4 8 0 CCCCCCC
23 23 A H < + 0 0 154 8 45 HHHNHNN
24 24 A b 0 0 47 8 0 CCCCCCC
25 25 A R 0 0 179 6 0 RRRRR
## 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 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 50 0 0 0 0 0 0 50 0 0 0 0 0 8 0 0 0.693 23 0.03
4 4 A 0 0 0 0 0 0 0 0 0 50 50 0 0 0 0 0 0 0 0 0 8 0 0 0.693 23 0.41
5 5 A 0 0 0 0 0 0 0 0 38 0 0 13 0 0 50 0 0 0 0 0 8 0 0 0.974 32 -0.02
6 6 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 88 0 8 0 0 0.377 12 0.79
9 9 A 0 50 0 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.693 23 0.89
10 10 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
11 11 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 8 0 0 0.000 0 1.00
13 13 A 0 38 0 0 0 0 0 0 38 0 0 25 0 0 0 0 0 0 0 0 8 0 0 1.082 36 0.10
14 14 A 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 0 0 25 0 0 8 0 0 0.562 18 0.64
15 15 A 0 0 50 0 0 0 0 0 0 0 0 0 0 25 0 0 13 0 13 0 8 0 0 1.213 40 -0.07
16 16 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 25 0 0 0 0 0 0 75 0 0 0 0 0 0 8 0 0 0.562 18 0.63
18 18 A 0 25 0 13 0 0 0 0 0 0 0 0 0 0 0 63 0 0 0 0 8 0 0 0.900 30 0.20
19 19 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
21 21 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 0 63 0 0 0 0 38 0 8 0 0 0.662 22 0.54
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 6 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
//