Complet list of 2mlp hssp file
Complete list of 2mlp.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2MLP
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 2014-05-23
HEADER LEADER PEPTIDE 21-JAN-98 2MLP
COMPND MOL_ID: 1; MOLECULE: MCBA PROPEPTIDE; CHAIN: A; FRAGMENT: LEADER PEPTI
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; ORGANISM_TAXID: 562;
AUTHOR S.KIM,R.SINHA ROY,C.T.WALSH,J.D.BALEJA
DBREF 2MLP A 1 26 UNP P05834 MCBA_ECOLI 1 26
SEQLENGTH 26
NCHAIN 1 chain(s) in 2MLP data set
NALIGN 18
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 : B7VF14_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 B7VF14 Protein mcbA OS=Escherichia coli GN=mcbA PE=4 SV=1
2 : L2YI25_ECOLX 1.00 1.00 1 26 1 26 26 0 0 71 L2YI25 Bacteriocin microcin B17 OS=Escherichia coli KTE39 GN=WG9_04953 PE=4 SV=1
3 : L3BDF8_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 L3BDF8 Bacteriocin microcin B17 OS=Escherichia coli KTE191 GN=A13S_05114 PE=4 SV=1
4 : L3R8A7_ECOLX 1.00 1.00 1 26 1 26 26 0 0 66 L3R8A7 Bacteriocin microcin B17 OS=Escherichia coli KTE81 GN=A1UY_04399 PE=4 SV=1
5 : L4TEZ0_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 L4TEZ0 Bacteriocin microcin B17 OS=Escherichia coli KTE106 GN=WI9_05018 PE=4 SV=1
6 : L5GGX5_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 L5GGX5 Bacteriocin microcin B17 OS=Escherichia coli KTE85 GN=WGO_05282 PE=4 SV=1
7 : MCBA_ECOLX 2MLP 1.00 1.00 1 26 1 26 26 0 0 69 P05834 Bacteriocin microcin B17 OS=Escherichia coli GN=mcbA PE=1 SV=1
8 : S0XWN3_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 S0XWN3 Bacteriocin microcin B17 OS=Escherichia coli KTE37 GN=WG5_01249 PE=4 SV=1
9 : S0ZDE9_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 S0ZDE9 Bacteriocin microcin B17 OS=Escherichia coli KTE38 GN=WG7_01214 PE=4 SV=1
10 : S1E0F3_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 S1E0F3 Bacteriocin microcin B17 OS=Escherichia coli KTE69 GN=A1UA_00949 PE=4 SV=1
11 : S1EHG7_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 S1EHG7 Bacteriocin microcin B17 OS=Escherichia coli KTE70 GN=A1UC_01609 PE=4 SV=1
12 : S1P5C1_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 S1P5C1 Bacteriocin microcin B17 OS=Escherichia coli KTE182 GN=A13A_05358 PE=4 SV=1
13 : T6C3A4_ECOLX 1.00 1.00 1 26 1 26 26 0 0 68 T6C3A4 Bacteriocin microcin B17 OS=Escherichia coli HVH 51 (4-2172526) GN=G724_04778 PE=4 SV=1
14 : T6L1F3_ECOLX 1.00 1.00 1 26 1 26 26 0 0 69 T6L1F3 Bacteriocin microcin B17 OS=Escherichia coli HVH 87 (4-5977630) GN=G749_05213 PE=4 SV=1
15 : T8AHR2_ECOLX 1.00 1.00 1 26 1 26 26 0 0 65 T8AHR2 Bacteriocin microcin B17 OS=Escherichia coli HVH 216 (4-3042952) GN=G868_04832 PE=4 SV=1
16 : T8I260_ECOLX 1.00 1.00 1 26 1 26 26 0 0 67 T8I260 Bacteriocin microcin B17 OS=Escherichia coli KOEGE 62 (175a) GN=G890_05361 PE=4 SV=1
17 : T9TR59_ECOLX 1.00 1.00 1 26 1 26 26 0 0 66 T9TR59 Bacteriocin microcin B17 OS=Escherichia coli UMEA 3834-1 GN=G997_04929 PE=4 SV=1
18 : T7G3C2_ECOLX 0.96 0.96 1 26 1 26 26 0 0 70 T7G3C2 Bacteriocin microcin B17 OS=Escherichia coli HVH 150 (4-3258106) GN=G808_04612 PE=4 SV=1
## ALIGNMENTS 1 - 18
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A M 0 0 235 19 0 MMMMMMMMMMMMMMMMMM
2 2 A E + 0 0 144 19 79 EEEEEEEEEEEEEEEEEK
3 3 A L - 0 0 144 19 0 LLLLLLLLLLLLLLLLLL
4 4 A K + 0 0 109 19 0 KKKKKKKKKKKKKKKKKK
5 5 A A S > S+ 0 0 72 19 0 AAAAAAAAAAAAAAAAAA
6 6 A S T 4 S+ 0 0 127 19 0 SSSSSSSSSSSSSSSSSS
7 7 A E T > S+ 0 0 118 19 0 EEEEEEEEEEEEEEEEEE
8 8 A F H > S+ 0 0 117 19 0 FFFFFFFFFFFFFFFFFF
9 9 A G H X S+ 0 0 41 19 0 GGGGGGGGGGGGGGGGGG
10 10 A V H > S+ 0 0 94 19 0 VVVVVVVVVVVVVVVVVV
11 11 A V H X S+ 0 0 61 19 0 VVVVVVVVVVVVVVVVVV
12 12 A L H X S+ 0 0 100 19 0 LLLLLLLLLLLLLLLLLL
13 13 A S H < S+ 0 0 78 19 0 SSSSSSSSSSSSSSSSSS
14 14 A V H >< S+ 0 0 58 19 0 VVVVVVVVVVVVVVVVVV
15 15 A D H 3< S+ 0 0 76 19 0 DDDDDDDDDDDDDDDDDD
16 16 A A T 3< S+ 0 0 53 19 0 AAAAAAAAAAAAAAAAAA
17 17 A L S <> S+ 0 0 93 19 0 LLLLLLLLLLLLLLLLLL
18 18 A K H > S+ 0 0 93 19 0 KKKKKKKKKKKKKKKKKK
19 19 A L H 4 S+ 0 0 97 19 0 LLLLLLLLLLLLLLLLLL
20 20 A S H 4 S+ 0 0 95 19 0 SSSSSSSSSSSSSSSSSS
21 21 A R H < S+ 0 0 149 19 0 RRRRRRRRRRRRRRRRRR
22 22 A Q S < S+ 0 0 145 19 0 QQQQQQQQQQQQQQQQQQ
23 23 A S S S- 0 0 88 19 0 SSSSSSSSSSSSSSSSSS
24 24 A P S S- 0 0 84 19 0 PPPPPPPPPPPPPPPPPP
25 25 A L 0 0 151 19 0 LLLLLLLLLLLLLLLLLL
26 26 A G 0 0 126 19 0 GGGGGGGGGGGGGGGGGG
## 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 19 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 5 0 95 0 0 19 0 0 0.206 6 0.20
3 3 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 19 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 19 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 19 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 19 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 19 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
10 10 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
11 11 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
12 12 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
14 14 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 19 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
17 17 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 19 0 0 0.000 0 1.00
19 19 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 19 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 19 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 19 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 19 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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