Complet list of 2ptl hssp file
Complete list of 2ptl.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2PTL
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 2014-05-24
HEADER BINDING PROTEIN(IMMUNOGLOBULIN L CHAIN) 12-AUG-94 2PTL
COMPND MOL_ID: 1; MOLECULE: PROTEIN L; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: FINEGOLDIA MAGNA; ORGANISM_TAXID: 3344
AUTHOR M.WIKSTROEM,T.DRAKENBERG,S.FORSEN,U.SJOEBRING,L.BJOERCK
DBREF 2PTL A 1 78 UNP Q51912 Q51912_PEPMA 24 101
SEQLENGTH 78
NCHAIN 1 chain(s) in 2PTL data set
NALIGN 4
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 : D6S9W1_FINMA 1.00 1.00 1 78 104 181 78 0 0 727 D6S9W1 LPXTG-motif cell wall anchor domain protein OS=Finegoldia magna ATCC 53516 GN=HMPREF0391_11247 PE=4 SV=1
2 : Q51912_FINMA2JZP 1.00 1.00 1 78 96 173 78 0 0 719 Q51912 Putative uncharacterized protein (Precursor) OS=Finegoldia magna PE=1 SV=1
3 : Q53291_FINMA1MHX 1.00 1.00 1 78 24 101 78 0 0 455 Q53291 Protein LG (Fragment) OS=Finegoldia magna PE=1 SV=1
4 : Q51918_FINMA4HKZ 0.82 0.89 8 78 247 317 71 0 0 992 Q51918 Protein L (Precursor) OS=Finegoldia magna PE=1 SV=1
## ALIGNMENTS 1 - 4
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A E 0 0 222 4 0 EEE
2 2 A N - 0 0 141 4 0 NNN
3 3 A K - 0 0 158 4 0 KKK
4 4 A E - 0 0 146 4 0 EEE
5 5 A E - 0 0 132 4 0 EEE
6 6 A T S S- 0 0 117 4 0 TTT
7 7 A P S S- 0 0 103 4 0 PPP
8 8 A E - 0 0 160 5 0 EEEE
9 9 A T - 0 0 108 5 86 TTTK
10 10 A P - 0 0 101 5 93 PPPE
11 11 A E S S+ 0 0 181 5 86 EEET
12 12 A T S S- 0 0 123 5 79 TTTP
13 13 A D - 0 0 91 5 33 DDDE
14 14 A S S S- 0 0 108 5 73 SSSP
15 15 A E S S- 0 0 183 5 0 EEEE
16 16 A E - 0 0 56 5 0 EEEE
17 17 A E S S- 0 0 159 5 0 EEEE
18 18 A V E -A 38 0A 34 5 0 VVVV
19 19 A T E -A 37 0A 90 5 0 TTTT
20 20 A I E -A 36 0A 3 5 0 IIII
21 21 A K E -Ab 35 71A 77 5 0 KKKK
22 22 A A E -Ab 34 72A 0 5 0 AAAA
23 23 A N E -Ab 33 73A 22 5 0 NNNN
24 24 A L E +Ab 32 74A 2 5 0 LLLL
25 25 A I E - b 0 75A 36 5 0 IIII
26 26 A F - 0 0 23 5 0 FFFF
27 27 A A S S+ 0 0 60 5 0 AAAA
28 28 A N S S- 0 0 116 5 53 NNND
29 29 A G S S+ 0 0 59 5 0 GGGG
30 30 A S + 0 0 61 5 0 SSSS
31 31 A T + 0 0 90 5 0 TTTT
32 32 A Q E -A 24 0A 109 5 0 QQQQ
33 33 A T E -A 23 0A 67 5 86 TTTN
34 34 A A E -A 22 0A 3 5 0 AAAA
35 35 A E E +A 21 0A 134 5 0 EEEE
36 36 A F E -A 20 0A 16 5 0 FFFF
37 37 A K E +A 19 0A 116 5 0 KKKK
38 38 A G E S+A 18 0A 23 5 0 GGGG
39 39 A T S S- 0 0 79 5 0 TTTT
40 40 A F S >> S+ 0 0 78 5 0 FFFF
41 41 A E H 3> S+ 0 0 102 5 79 EEEA
42 42 A K H 3> S+ 0 0 116 5 0 KKKK
43 43 A A H <> S+ 0 0 4 5 0 AAAA
44 44 A T H X S+ 0 0 30 5 86 TTTV
45 45 A S H X S+ 0 0 65 5 0 SSSS
46 46 A E H X S+ 0 0 96 5 33 EEED
47 47 A A H X S+ 0 0 0 5 0 AAAA
48 48 A Y H X S+ 0 0 107 5 0 YYYY
49 49 A A H X S+ 0 0 59 5 0 AAAA
50 50 A Y H < S+ 0 0 101 5 0 YYYY
51 51 A A H < S+ 0 0 0 5 0 AAAA
52 52 A D H >< S+ 0 0 91 5 0 DDDD
53 53 A T T 3< S+ 0 0 114 5 73 TTTA
54 54 A L T 3 S+ 0 0 46 5 0 LLLL
55 55 A K < + 0 0 92 5 0 KKKK
56 56 A K S S- 0 0 168 5 0 KKKK
57 57 A D S S+ 0 0 132 5 0 DDDD
58 58 A N S S- 0 0 40 5 0 NNNN
59 59 A G - 0 0 50 5 0 GGGG
60 60 A E - 0 0 112 5 0 EEEE
61 61 A Y E -C 76 0A 31 5 0 YYYY
62 62 A T E -C 75 0A 88 5 0 TTTT
63 63 A V E -C 74 0A 48 5 0 VVVV
64 64 A D - 0 0 85 5 0 DDDD
65 65 A V + 0 0 102 5 0 VVVV
66 66 A A B >> +D 71 0A 47 5 0 AAAA
67 67 A D T 45S- 0 0 112 5 0 DDDD
68 68 A K T 45S- 0 0 172 5 0 KKKK
69 69 A G T 45S+ 0 0 28 5 0 GGGG
70 70 A Y T <5 + 0 0 5 5 79 YYYL
71 71 A T E < -bD 21 66A 28 5 0 TTTT
72 72 A L E -b 22 0A 6 5 0 LLLL
73 73 A N E -b 23 0A 44 5 0 NNNN
74 74 A I E -bC 24 63A 0 5 0 IIII
75 75 A K E -bC 25 62A 94 5 0 KKKK
76 76 A F E - C 0 61A 1 5 0 FFFF
77 77 A A 0 0 61 5 0 AAAA
78 78 A G 0 0 105 5 0 GGGG
## 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 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 4 0 0 0.000 0 1.00
2 2 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
3 3 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
4 4 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
5 5 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
6 6 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
7 7 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 4 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 0 0 100 0 0 5 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 80 0 0 0 20 0 0 0 0 5 0 0 0.500 16 0.13
10 10 A 0 0 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 20 0 0 5 0 0 0.500 16 0.07
11 11 A 0 0 0 0 0 0 0 0 0 0 0 20 0 0 0 0 0 80 0 0 5 0 0 0.500 16 0.13
12 12 A 0 0 0 0 0 0 0 0 0 20 0 80 0 0 0 0 0 0 0 0 5 0 0 0.500 16 0.20
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 0 80 5 0 0 0.500 16 0.67
14 14 A 0 0 0 0 0 0 0 0 0 20 80 0 0 0 0 0 0 0 0 0 5 0 0 0.500 16 0.27
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 5 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 5 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 5 0 0 0.000 0 1.00
18 18 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
20 20 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 5 0 0 0.000 0 1.00
24 24 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
25 25 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
26 26 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 20 5 0 0 0.500 16 0.47
29 29 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 5 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 0 0 80 0 0 0 0 0 0 20 0 5 0 0 0.500 16 0.13
34 34 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 5 0 0 0.000 0 1.00
36 36 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
37 37 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
38 38 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
39 39 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
40 40 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
41 41 A 0 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 0 80 0 0 5 0 0 0.500 16 0.20
42 42 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
43 43 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
44 44 A 20 0 0 0 0 0 0 0 0 0 0 80 0 0 0 0 0 0 0 0 5 0 0 0.500 16 0.13
45 45 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
46 46 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 0 20 5 0 0 0.500 16 0.67
47 47 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
48 48 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
49 49 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
50 50 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
51 51 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
52 52 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 5 0 0 0.000 0 1.00
53 53 A 0 0 0 0 0 0 0 0 20 0 0 80 0 0 0 0 0 0 0 0 5 0 0 0.500 16 0.27
54 54 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
55 55 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
56 56 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
57 57 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 5 0 0 0.000 0 1.00
58 58 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 5 0 0 0.000 0 1.00
59 59 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
60 60 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 5 0 0 0.000 0 1.00
61 61 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
62 62 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
63 63 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
64 64 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 5 0 0 0.000 0 1.00
65 65 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
66 66 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
67 67 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 5 0 0 0.000 0 1.00
68 68 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
69 69 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
70 70 A 0 20 0 0 0 0 80 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.500 16 0.20
71 71 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
72 72 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
73 73 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 5 0 0 0.000 0 1.00
74 74 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
75 75 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 5 0 0 0.000 0 1.00
76 76 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
77 77 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
78 78 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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