Complet list of 2cw1 hssp file
Complete list of 2cw1.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2CW1
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 2014-04-29
HEADER DE NOVO PROTEIN 15-JUN-05 2CW1
COMPND MOL_ID: 1; MOLECULE: SN4M; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: CHEMICALLY SYNTHESIZED
AUTHOR Y.ISOGAI,Y.ITO,T.IKEYA,Y.SHIRO,M.OTA
DBREF 2CW1 A 1 65 PDB 2CW1 2CW1 1 65
SEQLENGTH 65
NCHAIN 1 chain(s) in 2CW1 data set
NALIGN 2
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 : R8Z9L6_PSEAI 0.36 0.51 4 62 3 61 59 0 0 66 R8Z9L6 Regulatory protein cro OS=Pseudomonas aeruginosa VRFPA02 GN=K652_25296 PE=4 SV=1
2 : T5KVE9_PSEAI 0.36 0.51 4 62 3 61 59 0 0 66 T5KVE9 Cro/Cl family transcriptional regulator OS=Pseudomonas aeruginosa WC55 GN=L683_24490 PE=4 SV=1
## ALIGNMENTS 1 - 2
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A M 0 0 125 1 0
2 2 A R + 0 0 215 1 0
3 3 A K + 0 0 111 1 0
4 4 A K B +A 41 0A 112 3 46 RR
5 5 A L - 0 0 56 3 46 II
6 6 A D >> - 0 0 88 3 86 SS
7 7 A L H 3> S+ 0 0 6 3 0 LL
8 8 A K H 3> S+ 0 0 109 3 0 KK
9 9 A K H <4 S+ 0 0 129 3 80 EE
10 10 A F H >< S+ 0 0 39 3 0 FF
11 11 A V H >< S+ 0 0 9 3 86 AA
12 12 A E T 3< S+ 0 0 142 3 80 AA
13 13 A D T < S- 0 0 100 3 80 KK
14 14 A K S < S- 0 0 127 3 73 NN
15 15 A N > - 0 0 50 3 73 GG
16 16 A Q H > S+ 0 0 71 3 0 QQ
17 17 A E H > S+ 0 0 120 3 86 TT
18 18 A Y H > S+ 0 0 75 3 140 KK
19 19 A A H X S+ 0 0 0 3 0 AA
20 20 A A H < S+ 0 0 18 3 0 AA
21 21 A R H < S+ 0 0 201 3 120 AA
22 22 A A H < S+ 0 0 33 3 106 LL
23 23 A L S < S- 0 0 11 3 0 LL
24 24 A G S S+ 0 0 23 3 0 GG
25 25 A L S S- 0 0 18 3 0 LL
26 26 A S > - 0 0 70 3 80 TT
27 27 A Q H > S+ 0 0 61 3 0 QQ
28 28 A K H > S+ 0 0 133 3 106 GG
29 29 A L H > S+ 0 0 56 3 106 AA
30 30 A I H X S+ 0 0 0 3 46 LL
31 31 A E H X>S+ 0 0 57 3 86 SS
32 32 A E H X5S+ 0 0 56 3 80 KK
33 33 A V H <>S+ 0 0 3 3 86 AA
34 34 A L H <5S+ 0 0 39 3 0 LL
35 35 A K H <5S+ 0 0 121 3 46 RR
36 36 A R T < +C 59 0C 56 3 73 KK
57 57 A D T 3 S- 0 0 157 3 93 PP
58 58 A G T 3 S+ 0 0 63 3 140 FF
59 59 A I E < -C 56 0C 113 3 113 PP
60 60 A T E +C 55 0C 70 3 0 TT
61 61 A Q E -C 54 0C 73 3 0 QQ
62 62 A P E -C 53 0C 40 3 0 PP
63 63 A F + 0 0 20 1 0
64 64 A P 0 0 107 1 0
65 65 A P 0 0 142 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 0 100 0 0 0 0 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 0 0 0 0 100 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 0 0 0 0 0 100 0 0 0 0 1 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 33 0 0 0 0 3 0 0 0.637 21 0.53
5 5 A 0 33 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.53
6 6 A 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 33 3 0 0 0.637 21 0.13
7 7 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 3 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 33 0 67 0 0 3 0 0 0.637 21 0.20
10 10 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
11 11 A 33 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.13
12 12 A 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 33 0 0 3 0 0 0.637 21 0.20
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 33 3 0 0 0.637 21 0.20
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 67 0 3 0 0 0.637 21 0.27
15 15 A 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 33 0 3 0 0 0.637 21 0.27
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 3 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 33 0 0 3 0 0 0.637 21 0.13
18 18 A 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 67 0 0 0 0 3 0 0 0.637 21 -0.40
19 19 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 67 0 0 0 0 0 33 0 0 0 0 0 3 0 0 0.637 21 -0.20
22 22 A 0 67 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 -0.07
23 23 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
25 25 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 0 0 0 33 67 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.20
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 3 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 33 0 0 0 0 3 0 0 0.637 21 -0.07
29 29 A 0 33 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 -0.07
30 30 A 0 67 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.53
31 31 A 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 33 0 0 3 0 0 0.637 21 0.13
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 33 0 0 3 0 0 0.637 21 0.20
33 33 A 33 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.13
34 34 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 33 0 0 0 0 3 0 0 0.637 21 0.53
36 36 A 0 0 0 0 0 0 0 0 67 0 0 0 0 0 33 0 0 0 0 0 3 0 0 0.637 21 -0.20
37 37 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
38 38 A 0 33 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 3 0 0 0.637 21 -0.27
39 39 A 0 0 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 67 0 0 3 0 0 0.637 21 0.07
40 40 A 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.73
41 41 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
42 42 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
43 43 A 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 33 0 0 3 0 0 0.637 21 0.20
44 44 A 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 0 0 67 0 0 3 0 0 0.637 21 0.13
45 45 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 3 0 0 0.000 0 1.00
46 46 A 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 33 0 0 0 0 3 0 0 0.637 21 0.00
47 47 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 3 0 0 0.000 0 1.00
48 48 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
49 49 A 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 33 0 3 0 0 0.637 21 0.13
50 50 A 0 0 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.47
51 51 A 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 33 0 0 0 0 3 0 0 0.637 21 0.13
52 52 A 33 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.13
53 53 A 0 0 0 0 0 0 33 0 0 0 0 0 0 0 0 0 0 67 0 0 3 0 0 0.637 21 -0.33
54 54 A 0 0 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 3 0 0 0.637 21 -0.13
55 55 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 3 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 67 33 0 0 0 3 0 0 0.637 21 0.27
57 57 A 0 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 33 3 0 0 0.637 21 0.07
58 58 A 0 0 0 0 67 0 0 33 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 -0.40
59 59 A 0 0 33 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 -0.13
60 60 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
61 61 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 3 0 0 0.000 0 1.00
62 62 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
63 63 A 0 0 0 0 100 0 0 0 0 0 0 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 0 0 100 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
65 65 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
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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