Complet list of 1hn3 hssp file
Complete list of 1hn3.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1HN3
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 2014-04-30
HEADER ANTITUMOR PROTEIN 05-DEC-00 1HN3
COMPND MOL_ID: 1; MOLECULE: P19 ARF PROTEIN; CHAIN: A; FRAGMENT: RESIDUES 1-3
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: MUS MUSCULUS; ORGANISM_COMMON: HOUSE M
AUTHOR E.L.DIGIAMMARINO,I.FILIPPOV,J.D.WEBER,B.BOTHNER,R.W.KRIWACKI
DBREF 1HN3 A 4 40 UNP Q64364 CD2A2_MOUSE 1 37
SEQLENGTH 40
NCHAIN 1 chain(s) in 1HN3 data set
NALIGN 6
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 : CD2A2_MOUSE 1HN3 1.00 1.00 4 40 1 37 37 0 0 169 Q64364 Cyclin-dependent kinase inhibitor 2A, isoform 3 OS=Mus musculus GN=Cdkn2a PE=1 SV=1
2 : Q9Z1E7_MUSSP 1.00 1.00 4 40 1 37 37 0 0 63 Q9Z1E7 P16INK4a tumor suppressor protein (Fragment) OS=Mus spretus GN=E1beta PE=4 SV=1
3 : CD2A2_RAT 0.68 0.89 4 40 1 37 37 0 0 160 Q8QZZ9 Cyclin-dependent kinase inhibitor 2A, isoform 2 OS=Rattus norvegicus GN=Cdkn2a PE=2 SV=1
4 : Q2I316_RAT 0.68 0.89 4 40 1 37 37 0 0 63 Q2I316 Cyclin-dependent kinase inhibitor 2a p19Arf (Fragment) OS=Rattus norvegicus GN=Cdkn2a PE=4 SV=1
5 : Q8CH52_MESAU 0.62 0.79 4 40 1 39 39 1 2 123 Q8CH52 Tumor suppressor p13ARF OS=Mesocricetus auratus GN=CDKN2A PE=2 SV=1
6 : L8J1Q3_9CETA 0.45 0.73 1 40 25 64 40 0 0 158 L8J1Q3 Cyclin-dependent kinase inhibitor 2A, isoform 4 (Fragment) OS=Bos mutus GN=M91_15272 PE=4 SV=1
## ALIGNMENTS 1 - 6
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 136 2 0 G
2 2 A S + 0 0 119 2 86 E
3 3 A H - 0 0 139 2 66 N
4 4 A M - 0 0 185 7 0 MMMMMM
5 5 A G S S+ 0 0 46 7 41 GGGGGV
6 6 A R > + 0 0 135 7 0 RRRRRR
7 7 A R H > S+ 0 0 170 7 0 RRRRRR
8 8 A F H > S+ 0 0 137 7 0 FFFFFF
9 9 A L H > S+ 0 0 77 7 31 LLVVVL
10 10 A V H X S+ 0 0 64 7 12 VVVVVI
11 11 A T H X S+ 0 0 86 7 0 TTTTTT
12 12 A V H X S+ 0 0 73 7 0 VVVVVV
13 13 A R H X S+ 0 0 164 7 0 RRRRRR
14 14 A I H X S+ 0 0 106 7 0 IIIIII
15 15 A Q H < S+ 0 0 112 7 50 QQRRrR
16 16 A R H < S+ 0 0 185 7 0 RRRRrR
17 17 A A H < S+ 0 0 86 7 39 AATTAA
18 18 A G S < S+ 0 0 49 7 46 GGGGDN
19 19 A R - 0 0 194 7 56 RRRRRG
20 20 A P S > S+ 0 0 101 7 39 PPSSPP
21 21 A L T 3 S+ 0 0 132 7 82 LLPPPP
22 22 A Q T >> + 0 0 41 7 47 QQQQRR
23 23 A E H <> S+ 0 0 108 7 77 EEVVVV
24 24 A R H 3> S+ 0 0 170 7 0 RRRRRR
25 25 A V H <> S+ 0 0 99 7 37 VVVVAI
26 26 A F H X S+ 0 0 140 7 0 FFFFFF
27 27 A L H X S+ 0 0 111 7 30 LLLLVV
28 28 A V H X S+ 0 0 98 7 0 VVVVVV
29 29 A K H X S+ 0 0 143 7 67 KKQQQH
30 30 A F H < S+ 0 0 147 7 25 FFFFFI
31 31 A V H >< S+ 0 0 65 7 80 VVLLPA
32 32 A R H 3< S+ 0 0 192 7 64 RRGGRR
33 33 A S T 3< S+ 0 0 72 7 34 SSSSSA
34 34 A R < + 0 0 199 7 87 RRSSSA
35 35 A R - 0 0 223 7 56 RRRRRG
36 36 A P - 0 0 114 7 63 PPPPHE
37 37 A R - 0 0 229 7 3 RRRRRW
38 38 A T - 0 0 129 7 70 TTSSSA
39 39 A A 0 0 107 7 0 AAAAAA
40 40 A S 0 0 191 7 68 SSNNSP
## 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 0 100 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 50 0 0 0 0 0 0 50 0 0 2 0 0 0.693 23 0.13
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 0 50 0 2 0 0 0.693 23 0.33
4 4 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
5 5 A 14 0 0 0 0 0 0 86 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.59
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 7 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 7 0 0 0.000 0 1.00
8 8 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
9 9 A 43 57 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.683 22 0.68
10 10 A 86 0 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.87
11 11 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
12 12 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 7 0 0 0.000 0 1.00
14 14 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 57 0 43 0 0 0 7 0 1 0.683 22 0.50
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 7 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 71 0 0 29 0 0 0 0 0 0 0 0 7 0 0 0.598 19 0.61
18 18 A 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 0 0 0 14 14 7 0 0 0.796 26 0.54
19 19 A 0 0 0 0 0 0 0 14 0 0 0 0 0 0 86 0 0 0 0 0 7 0 0 0.410 13 0.43
20 20 A 0 0 0 0 0 0 0 0 0 71 29 0 0 0 0 0 0 0 0 0 7 0 0 0.598 19 0.61
21 21 A 0 43 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 0 0 0 7 0 0 0.683 22 0.18
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 29 0 71 0 0 0 7 0 0 0.598 19 0.53
23 23 A 57 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 43 0 0 7 0 0 0.683 22 0.22
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 7 0 0 0.000 0 1.00
25 25 A 71 0 14 0 0 0 0 0 14 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.796 26 0.62
26 26 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
27 27 A 29 71 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.598 19 0.70
28 28 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 43 43 0 0 0 7 0 0 1.004 33 0.32
30 30 A 0 0 14 0 86 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.75
31 31 A 43 29 0 0 0 0 0 0 14 14 0 0 0 0 0 0 0 0 0 0 7 0 0 1.277 42 0.19
32 32 A 0 0 0 0 0 0 0 29 0 0 0 0 0 0 71 0 0 0 0 0 7 0 0 0.598 19 0.36
33 33 A 0 0 0 0 0 0 0 0 14 0 86 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.65
34 34 A 0 0 0 0 0 0 0 0 14 0 43 0 0 0 43 0 0 0 0 0 7 0 0 1.004 33 0.12
35 35 A 0 0 0 0 0 0 0 14 0 0 0 0 0 0 86 0 0 0 0 0 7 0 0 0.410 13 0.43
36 36 A 0 0 0 0 0 0 0 0 0 71 0 0 0 14 0 0 0 14 0 0 7 0 0 0.796 26 0.36
37 37 A 0 0 0 0 0 14 0 0 0 0 0 0 0 0 86 0 0 0 0 0 7 0 0 0.410 13 0.97
38 38 A 0 0 0 0 0 0 0 0 14 0 43 43 0 0 0 0 0 0 0 0 7 0 0 1.004 33 0.30
39 39 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
40 40 A 0 0 0 0 0 0 0 0 0 14 57 0 0 0 0 0 0 0 29 0 7 0 0 0.956 31 0.31
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
5 13 13 2 rRRr
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