Complet list of 1ls4 hssp file
Complete list of 1ls4.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1LS4
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 2014-05-03
HEADER LIPID TRANSPORT 16-MAY-02 1LS4
COMPND MOL_ID: 1; MOLECULE: APOLIPOPHORIN-III; CHAIN: A; SYNONYM: APOLP-III;
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: LOCUSTA MIGRATORIA; ORGANISM_COMMON: M
AUTHOR D.FAN,J.WANG
DBREF 1LS4 A -15 164 UNP P10762 APL3_LOCMI 1 180
SEQLENGTH 164
NCHAIN 1 chain(s) in 1LS4 data set
NALIGN 1
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 : APL3_LOCMI 1LS4 0.90 0.92 1 164 17 179 164 1 1 179 P10762 Apolipophorin-3b OS=Locusta migratoria PE=1 SV=1
## ALIGNMENTS 1 - 1
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A R 0 0 233 2 0 R
2 2 A P - 0 0 87 2 0 P
3 3 A D S > >S- 0 0 93 2 0 D
4 4 A A T 3>5S- 0 0 33 2 0 A
5 5 A A T 345S- 0 0 58 2 0 A
6 6 A G T <45S+ 0 0 34 2 0 G
7 7 A H T 45S+ 0 0 61 2 0 H
8 8 A V << + 0 0 33 2 0 V
9 9 A N S > S+ 0 0 76 2 0 N
10 10 A I H > S+ 0 0 27 2 0 I
11 11 A A H > S+ 0 0 24 2 0 A
12 12 A E H > S+ 0 0 80 2 0 E
13 13 A A H >< S+ 0 0 55 2 0 A
14 14 A V H >X S+ 0 0 11 2 0 V
15 15 A Q H 3X S+ 0 0 122 2 0 Q
16 16 A Q H S+ 0 0 15 2 0 L
18 18 A N H 3X S+ 0 0 42 2 0 N
19 19 A H H 3X S+ 0 0 133 2 0 H
20 20 A T H XX S+ 0 0 21 2 0 T
21 21 A I H 3X S+ 0 0 2 2 0 I
22 22 A V H 3X S+ 0 0 71 2 0 V
23 23 A N H < S+ 0 0 0 2 0 T
32 32 A L H 3X S+ 0 0 44 2 0 L
33 33 A G H 3< S+ 0 0 52 2 0 G
34 34 A L T << S+ 0 0 72 2 0 L
35 35 A P T 4 S- 0 0 57 2 0 P
36 36 A T X - 0 0 65 2 0 T
37 37 A P T 4 S+ 0 0 108 2 0 P
38 38 A D T >4 S+ 0 0 80 2 0 D
39 39 A E T >4 S+ 0 0 116 2 0 E
40 40 A A T >X S+ 0 0 2 2 0 A
41 41 A L H <> S+ 0 0 34 2 0 L
42 42 A N H <> S+ 0 0 84 2 0 N
43 43 A L H <> S+ 0 0 48 2 0 L
44 44 A L H X S+ 0 0 2 2 0 L
45 45 A T H X S+ 0 0 40 2 0 T
46 46 A E H X S+ 0 0 125 2 0 E
47 47 A Q H >X S+ 0 0 26 2 0 Q
48 48 A A H 3X S+ 0 0 2 2 0 A
49 49 A N H 3X S+ 0 0 77 2 0 N
50 50 A A H X S+ 0 0 4 2 0 V
59 59 A T H >X S+ 0 0 5 2 0 T
60 60 A T H 3X S+ 0 0 71 2 0 T
61 61 A S H < S+ 0 0 79 2 0 K
64 64 A Q H >< S+ 0 0 100 2 0 Q
65 65 A E H XX>S+ 0 0 23 2 0 E
66 66 A A T <<5S+ 0 0 16 2 0 A
67 67 A E T <45S+ 0 0 145 2 0 E
68 68 A K T <45S- 0 0 157 2 0 K
69 69 A H T ><5S+ 0 0 166 2 0 H
70 70 A Q T 3> S+ 0 0 22 2 0 G
72 72 A S H <4 S+ 0 0 96 2 0 S
73 73 A V H >> S+ 0 0 76 2 0 V
74 74 A A H 3X S+ 0 0 15 2 0 A
75 75 A E H 3X S+ 0 0 149 2 0 E
76 76 A Q H X> S+ 0 0 115 2 0 Q
77 77 A L H >X S+ 0 0 19 2 0 L
78 78 A N H 3X S+ 0 0 46 2 0 N
79 79 A A H X S+ 0 0 0 2 0 A
82 82 A R H 3X S+ 0 0 140 2 0 R
83 83 A N H 3X S+ 0 0 55 2 0 N
84 84 A L H X S+ 0 0 16 2 0 I
89 89 A H H 3< S+ 0 0 115 2 0 H
90 90 A D T 3< S+ 0 0 88 2 0 D
91 91 A A T <4 S+ 0 0 4 2 0 A
92 92 A A S < S+ 0 0 20 2 0 A
93 93 A T + 0 0 58 2 0 T
94 94 A S + 0 0 46 2 0 S
95 95 A L + 0 0 129 2 106 A
96 96 A N S S- 0 0 88 2 73 Q
97 97 A L S S+ 0 0 54 2 120 P
98 98 A Q S > S+ 0 0 141 2 86 A
99 99 A D H > S+ 0 0 44 2 0 D
100 100 A Q H > S+ 0 0 3 2 0 Q
101 101 A L H > S+ 0 0 17 2 0 L
102 102 A N H X S+ 0 0 84 2 0 N
103 103 A S H X S+ 0 0 20 2 0 S
104 104 A L H X S+ 0 0 7 2 0 L
105 105 A Q H X S+ 0 0 63 2 0 Q
106 106 A S H X S+ 0 0 78 2 0 S
107 107 A A H X S+ 0 0 15 2 0 A
108 108 A L H X S+ 0 0 2 2 0 L
109 109 A T H X S+ 0 0 62 2 0 T
110 110 A N H X S+ 0 0 37 2 0 N
111 111 A V H X S+ 0 0 13 2 0 V
112 112 A G H X S+ 0 0 5 2 0 G
113 113 A H H X S+ 0 0 132 2 0 H
114 114 A Q H >X S+ 0 0 26 2 0 Q
115 115 A W H 3X S+ 0 0 21 2 0 W
116 116 A Q H 3X S+ 0 0 72 2 0 Q
117 117 A D H XX S+ 0 0 61 2 86 T
118 118 A I H 3X S+ 0 0 16 2 106 S
119 119 A A H 3< S+ 0 0 2 2 86 Q
120 120 A T H XX S+ 0 0 72 2 80 P
121 121 A K H >X S+ 0 0 58 2 46 R
122 122 A T H 3X S+ 0 0 5 2 80 P
123 123 A Q H <4 S+ 0 0 115 2 106 S
124 124 A A H << S+ 0 0 94 2 86 V
125 125 A S H < S+ 0 0 53 2 73 A
126 126 A A S < S+ 0 0 33 2 86 Q
127 127 A Q S > S+ 0 0 157 1 0 .
128 128 A E T 4 S+ 0 0 129 2 0 E
129 129 A A T > S+ 0 0 4 2 0 A
130 130 A W H > S+ 0 0 97 2 0 W
131 131 A A H X S+ 0 0 40 2 0 A
132 132 A P H > S+ 0 0 43 2 0 P
133 133 A V H X>S+ 0 0 12 2 0 V
134 134 A Q H X5S+ 0 0 73 2 0 Q
135 135 A S H X5S+ 0 0 46 2 0 S
136 136 A A H X5S+ 0 0 3 2 0 A
137 137 A L H X5S+ 0 0 12 2 0 L
138 138 A Q H XX S+ 0 0 5 2 0 L
152 152 A Q H 3X S+ 0 0 30 2 0 Q
153 153 A N H 3X S+ 0 0 87 2 0 N
154 154 A S H