Complet list of 2cpw hssp file
Complete list of 2cpw.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2CPW
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 2014-05-17
HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 19-MAY-05 2CPW
COMPND MOL_ID: 1; MOLECULE: CBL-INTERACTING PROTEIN STS-1 VARIANT; CHAIN: A;
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: HOMO SAPIENS; ORGANISM_COMMON: HUMAN;
AUTHOR A.Z.M.RUHUL MOMEN,H.ONUKI,H.HIROTA,F.HAYASHI,S.YOKOYAMA, RIKEN STRUCTU
DBREF 2CPW A 8 58 UNP Q53GT8 Q53GT8_HUMAN 26 76
SEQLENGTH 64
NCHAIN 1 chain(s) in 2CPW 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 : D3YVT5_MOUSE 0.54 0.58 8 60 15 98 84 1 31 116 D3YVT5 Ubiquitin-associated and SH3 domain-containing protein B (Fragment) OS=Mus musculus GN=Ubash3b PE=2 SV=1
## ALIGNMENTS 1 - 1
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 124 1 0
2 2 A S + 0 0 117 1 0
3 3 A S - 0 0 127 1 0
4 4 A G - 0 0 67 1 0
5 5 A S + 0 0 131 1 0
6 6 A S + 0 0 118 1 0
7 7 A G S S+ 0 0 65 1 0
8 8 A R - 0 0 182 2 0 R
9 9 A N - 0 0 143 2 53 D
10 10 A R S S- 0 0 222 2 0 R
11 11 A Q - 0 0 73 2 106 L
12 12 A Q + 0 0 153 2 0 Q
13 13 A R S S- 0 0 161 2 0 R
14 14 A P S S- 0 0 85 2 0 P
15 15 A G - 0 0 32 2 0 G
16 16 A T S S+ 0 0 88 2 0 T
17 17 A I S S+ 0 0 157 2 26 V
18 18 A K S S- 0 0 150 2 0 K
19 19 A H - 0 0 147 2 0 H
20 20 A G - 0 0 13 2 0 G
21 21 A S > - 0 0 56 2 0 S
22 22 A A H > S+ 0 0 31 2 0 A
23 23 A L H > S+ 0 0 37 2 0 L
24 24 A D H > S+ 0 0 78 2 0 D
25 25 A V H >X S+ 0 0 43 2 0 V
26 26 A L H 3X>S+ 0 0 0 2 0 L
27 27 A L H 3<5S+ 0 0 65 2 0 L
28 28 A S H <<5S+ 0 0 82 2 0 S
29 29 A M H <5S- 0 0 101 2 0 M
30 30 A G T <5S+ 0 0 66 2 0 G
31 31 A F < - 0 0 57 2 0 F
32 32 A P > - 0 0 73 2 0 P
33 33 A R H > S+ 0 0 156 2 0 r
34 34 A A H > S+ 0 0 62 2 66 p
35 35 A R H > S+ 0 0 157 2 120 G
36 36 A A H X S+ 0 0 0 2 120 R
37 37 A Q H X S+ 0 0 100 2 0 Q
38 38 A K H X S+ 0 0 134 2 0 K
39 39 A A H X S+ 0 0 0 2 0 A
40 40 A L H < S+ 0 0 18 2 0 L
41 41 A A H >< S+ 0 0 60 2 0 A
42 42 A S H 3< S+ 0 0 66 2 0 S
43 43 A T T >< S- 0 0 43 2 0 T
44 44 A G T < - 0 0 58 2 0 G
45 45 A G T 3 S+ 0 0 44 2 0 G
46 46 A R S < S+ 0 0 233 2 0 R
47 47 A S > - 0 0 60 2 0 S
48 48 A V H > S+ 0 0 32 2 0 V
49 49 A Q H > S+ 0 0 157 2 0 Q
50 50 A T H > S+ 0 0 76 2 73 A
51 51 A A H X S+ 0 0 0 2 0 A
52 52 A C H X S+ 0 0 16 2 0 C
53 53 A D H X S+ 0 0 114 2 0 D
54 54 A W H < S+ 0 0 47 2 0 W
55 55 A L H < S+ 0 0 30 2 0 L
56 56 A F H < S+ 0 0 148 2 0 F
57 57 A S S < S- 0 0 49 2 0 S
58 58 A H - 0 0 179 2 0 H
59 59 A S + 0 0 78 2 106 V
60 60 A G S S- 0 0 52 2 0 G
61 61 A P - 0 0 123 1 0
62 62 A S - 0 0 122 1 0
63 63 A S 0 0 116 1 0
64 64 A G 0 0 129 1 0
## 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 1 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 2 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 50 50 2 0 0 0.693 23 0.47
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 2 0 0 0.000 0 1.00
11 11 A 0 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 2 0 0 0.693 23 -0.07
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 2 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 2 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
15 15 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
16 16 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
17 17 A 50 0 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.693 23 0.73
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 2 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 2 0 0 0.000 0 1.00
20 20 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
21 21 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 2 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 2 0 0 0.000 0 1.00
23 23 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 2 0 0 0.000 0 1.00
25 25 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
26 26 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
27 27 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
29 29 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
30 30 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
31 31 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 2 0 1 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 0 50 50 0 0 0 0 0 0 0 0 0 0 2 0 0 0.693 23 0.33
35 35 A 0 0 0 0 0 0 0 50 0 0 0 0 0 0 50 0 0 0 0 0 2 0 0 0.693 23 -0.20
36 36 A 0 0 0 0 0 0 0 0 50 0 0 0 0 0 50 0 0 0 0 0 2 0 0 0.693 23 -0.20
37 37 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 2 0 0 0.000 0 1.00
38 38 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 2 0 0 0.000 0 1.00
39 39 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
40 40 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
41 41 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
42 42 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
43 43 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
44 44 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
45 45 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
46 46 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 2 0 0 0.000 0 1.00
47 47 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
48 48 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
49 49 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 2 0 0 0.000 0 1.00
50 50 A 0 0 0 0 0 0 0 0 50 0 0 50 0 0 0 0 0 0 0 0 2 0 0 0.693 23 0.27
51 51 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
52 52 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
53 53 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 2 0 0 0.000 0 1.00
54 54 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
55 55 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
56 56 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
57 57 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 2 0 0 0.000 0 1.00
58 58 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 2 0 0 0.000 0 1.00
59 59 A 50 0 0 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 0 0 2 0 0 0.693 23 -0.07
60 60 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
61 61 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
62 62 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
63 63 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
64 64 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
1 27 41 31 rARATARETLFFSEASCEPSLGKLRAWSLLNSp
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