Complet list of 1ha9 hssp file
Complete list of 1ha9.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1HA9
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 PROTEASE INHIBITOR 02-APR-01 1HA9
COMPND MOL_ID: 1; MOLECULE: TRYPSIN INHIBITOR II; CHAIN: A; SYNONYM: MCOTI-II
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: MOMORDICA COCHINCHINENSIS; ORGANISM_TA
AUTHOR A.HEITZ,J.-F.HERNANDEZ,J.GAGNON,T.T.HONG,T.T.C.PHAM, T.M.NGUYEN,D.LE-N
DBREF 1HA9 A 1 34 UNP P82409 ITR2_MOMCO 1 34
SEQLENGTH 34
NCHAIN 1 chain(s) in 1HA9 data set
NALIGN 38
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 : ITR2_MOMCO 2PO8 1.00 1.00 1 34 1 34 34 0 0 34 P82409 Trypsin inhibitor 2 OS=Momordica cochinchinensis PE=1 SV=1
2 : J3R2I9_MOMCO 0.97 1.00 4 34 92 122 31 0 0 331 J3R2I9 Two inhibitor peptide topologies 2 (Precursor) OS=Momordica cochinchinensis GN=TIPTOP2 PE=2 SV=1
3 : J3R9Z5_MOMCO 0.97 1.00 4 34 92 122 31 0 0 431 J3R9Z5 Two inhibitor peptide topologies 3 (Precursor) OS=Momordica cochinchinensis GN=TIPTOP3 PE=2 SV=1
4 : J3RCD6_MOMCO 0.97 1.00 4 34 92 122 31 0 0 281 J3RCD6 Two inhibitor peptide topologies 1 (Precursor) OS=Momordica cochinchinensis GN=TIPTOP1 PE=2 SV=1
5 : J7IN40_9ROSI 0.97 1.00 4 34 190 220 31 0 0 330 J7IN40 Two inhibitor peptide topologies 2 OS=Momordica sphaeroidea GN=TIPTOP2 PE=3 SV=1
6 : ITR1_MOMCO 0.94 1.00 1 34 1 34 34 0 0 34 P82408 Trypsin inhibitor 1 OS=Momordica cochinchinensis PE=1 SV=1
7 : ITR3_MOMCO 2LJS 0.85 0.93 8 34 4 30 27 0 0 30 P82410 Trypsin inhibitor 3 OS=Momordica cochinchinensis PE=1 SV=1
8 : ITR1_MOMCH 0.70 0.93 8 34 4 30 27 0 0 30 P10294 Trypsin inhibitor 1 OS=Momordica charantia PE=1 SV=1
9 : ITR3_MOMCH 0.67 0.93 8 34 4 30 27 0 0 30 Q9S747 Trypsin inhibitor 3 OS=Momordica charantia PE=1 SV=1
10 : ITR3_CUCPE 2STB 0.64 0.79 7 34 5 32 28 0 0 32 P10293 Trypsin inhibitor 3 OS=Cucurbita pepo PE=1 SV=1
11 : ITR2_BRYDI 0.63 0.89 8 34 3 29 27 0 0 29 P11968 Trypsin inhibitor 2 OS=Bryonia dioica PE=1 SV=1
12 : ITR2_SECED 0.63 0.81 8 34 6 32 27 0 0 32 P84451 Trypsin inhibitor 2b OS=Sechium edule PE=1 SV=1
13 : ITR2B_CUCSA 0.62 0.76 7 34 2 30 29 1 1 32 P10291 Trypsin inhibitor 2b OS=Cucumis sativus PE=1 SV=1
14 : ITR4_CUCMA 0.61 0.82 7 34 5 32 28 0 0 32 P07853 Trypsin inhibitor 4 OS=Cucurbita maxima PE=1 SV=2
15 : ITR1_MOMRE 0.59 0.83 6 34 1 29 29 0 0 29 P17680 Trypsin inhibitor 1 OS=Momordica repens PE=1 SV=1
16 : Q9S8D2_CUCME 0.59 0.74 8 34 3 29 27 0 0 29 Q9S8D2 CMETI-B=TRYPSIN inhibitor OS=Cucumis melo PE=3 SV=1
17 : Q9S8W2_CUCME 0.59 0.78 8 34 4 30 27 0 0 30 Q9S8W2 CMCTI-III=TRYPSIN inhibitor OS=Cucumis melo PE=3 SV=1
18 : ITR1_CUCMA 2V1V 0.57 0.79 7 34 2 29 28 0 0 29 P01074 Trypsin inhibitor 1 OS=Cucurbita maxima PE=1 SV=1
19 : ITR3_CUCMC 0.57 0.79 7 34 3 30 28 0 0 30 P32041 Trypsin inhibitor 3 OS=Cucumis melo var. conomon PE=1 SV=1
20 : ITR3_LUFAE 0.57 0.71 7 34 2 29 28 0 0 29 Q9S8I2 Trypsin inhibitor 3 OS=Luffa aegyptiaca PE=1 SV=1
21 : ITR4_CYCPE 0.57 0.79 7 34 2 29 28 0 0 29 P83395 Trypsin inhibitor 4 OS=Cyclanthera pedata PE=1 SV=1
22 : ITR4_LUFAE 0.57 0.71 7 34 1 28 28 0 0 28 P35628 Trypsin inhibitor 4 OS=Luffa aegyptiaca PE=1 SV=1
23 : ITR6_CYCPE 0.57 0.82 7 34 3 30 28 0 0 30 P83397 Trypsin inhibitor 6 OS=Cyclanthera pedata PE=1 SV=1
24 : ITR7_CYCPE 0.57 0.86 7 34 3 30 28 0 0 30 P83398 Trypsin inhibitor 7 OS=Cyclanthera pedata PE=1 SV=1
25 : Q9S8W3_CUCME 0.57 0.79 7 34 1 28 28 0 0 28 Q9S8W3 CMCTI-I=TRYPSIN inhibitor OS=Cucumis melo PE=3 SV=1
26 : ITR2_ECBEL 1W7Z 0.56 0.85 8 34 2 28 27 0 0 30 P12071 Trypsin inhibitor 2 OS=Ecballium elaterium PE=1 SV=2
27 : ITR5_LUFAE 0.56 0.71 1 34 30 63 34 0 0 63 P34950 Trypsin inhibitor 5 OS=Luffa aegyptiaca PE=1 SV=1
28 : ITR5_SECED 0.56 0.78 8 34 1 27 27 0 0 27 P84452 Trypsin inhibitor 5 OS=Sechium edule PE=1 SV=1
29 : ITR1_LUFAE 0.54 0.71 7 34 2 29 28 0 0 29 P25849 Trypsin inhibitor 1 OS=Luffa aegyptiaca PE=1 SV=1
30 : ITR3_CYCPE 0.54 0.75 7 34 2 29 28 0 0 29 P83394 Trypsin inhibitor 3 OS=Cyclanthera pedata PE=1 SV=1
31 : ITR5_CYCPE 0.54 0.79 7 34 2 29 28 0 0 29 P83396 Trypsin inhibitor 5 OS=Cyclanthera pedata PE=1 SV=1
32 : ITR1_TRIKI 0.52 0.70 8 34 39 65 27 0 0 65 Q43667 Trypsin inhibitor 1 OS=Trichosanthes kirilowii PE=3 SV=1
33 : ITR2_LUFAE 0.52 0.69 7 34 2 30 29 1 1 30 P25850 Trypsin inhibitor 2 OS=Luffa aegyptiaca PE=1 SV=1
34 : ITR4_CUCSA 0.52 0.76 7 34 2 30 29 1 1 30 P10292 Trypsin inhibitor 4 OS=Cucumis sativus PE=1 SV=1
35 : ITRA_MOMCH 1MCT 0.52 0.63 8 34 3 28 27 1 1 28 P30709 Trypsin inhibitor A OS=Momordica charantia PE=1 SV=1
36 : A6N2U8_MOMCH 0.50 0.68 7 34 2 28 28 1 1 28 A6N2U8 Trypsin inhibitor 2 (Fragment) OS=Momordica charantia PE=3 SV=1
37 : IELI_MOMCH 0.50 0.64 7 34 5 31 28 1 1 31 P10296 Elastase inhibitor 4 OS=Momordica charantia PE=1 SV=2
38 : ITR2_MOMCH 1F2S 0.50 0.68 7 34 2 28 28 1 1 28 P10295 Trypsin inhibitor 2 OS=Momordica charantia PE=1 SV=1
## ALIGNMENTS 1 - 38
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A S 0 0 26 4 0 S S S
2 2 A G - 0 0 29 4 0 G G G
3 3 A S B > S+A 6 0A 94 4 85 S S R
4 4 A D T 3 S+ 0 0 167 8 64 DNNNND H
5 5 A G T 3 S- 0 0 61 8 0 GGGGGG G
6 6 A G B < -A 3 0A 35 9 0 GGGGGG G G
7 7 A V - 0 0 127 28 26 VVVVVV V VVI VMIIIIIM I III IM III
8 8 A a - 0 0 1 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9 9 A P - 0 0 113 39 0 PPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPP
10 10 A K - 0 0 129 39 30 KKKKKKRRRKRKKRRRKRKRRRRRKRRRRRRRRRRRLR
11 11 A I - 0 0 80 39 0 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
12 12 A L + 0 0 158 39 15 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLWWWW
13 13 A K - 0 0 105 39 42 KKKKKQKKKMMMMMMMMMMMMMMMMMMMMMMMMMMMMM
14 14 A K B +B 32 0B 151 39 58 KKKKKRKQQERRKKEKKEKEEPKKKRPKEEEPEKEEEE
15 15 A b - 0 0 24 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
16 16 A R S S+ 0 0 221 39 37 RRRRRRRKKKKKKKKKKKKSKSKKKKKKSKKKSKTKKK
17 17 A R S > S- 0 0 126 39 73 RRRRRRRRQKRRHKRTQKQSASKKQQTLSAAVSHRRRR
18 18 A D G > S+ 0 0 64 39 3 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDNDDDDDD
19 19 A S G 3 S+ 0 0 117 39 19 SSSSSSSSSSSSSSSRSSSSSSSSSSDTSSSDSSSSSS
20 20 A D G < S+ 0 0 61 39 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDD
21 21 A c S < S- 0 0 18 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
22 22 A P > - 0 0 52 39 60 PPPPPPPPPLLLLLLLLLLLLLLLLLMFLLLLLLMMLM
23 23 A G T 3 S+ 0 0 88 39 63 GGGGGGGGGAAALAATLALAAAAALALPAAARAPAAAA
24 24 A A T 3 S+ 0 0 19 39 62 AAAAAAEEEEGKDEQGDEDEQEEEDGDTEQQGEGKQQQ
25 25 A a < - 0 0 11 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
26 26 A I - 0 0 59 39 35 IIIIIIIIIIVTVVVTVVVIIIIIVVRTIIIKIVIIII
27 27 A b B -C 33 0C 14 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
28 28 A R > - 0 0 137 39 83 RRRRRRKMMLQQLLKKLLLLQLEQLGLRLEQLLLVVVV
29 29 A G T 3 S+ 0 0 93 39 66 GGGGGGEAAEKEEERRKEKEEEEEKPSPEEESEEADDD
30 30 A N T 3 S- 0 0 119 39 61 NNNNNNNHHHNSdHQNEHENNNHHENNSQSSNqhGGGG
31 31 A G S < S+ 0 0 29 35 4 GGGGGGGGGGGGgGGGGGGGGGGGGGGGGGGGge....
32 32 A Y B S-B 14 0B 86 39 23 YYYYYYYFFYYYYYYYFYFFFFFFFFYFFFFYFYHHHH
33 33 A c B C 27 0C 12 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
34 34 A G 0 0 8 39 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
## 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 0 0 0 100 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 75 0 0 0 25 0 0 0 0 0 4 0 0 0.562 18 0.14
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0 0 50 38 8 0 0 0.974 32 0.35
5 5 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0.000 0 1.00
7 7 A 39 0 50 11 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 28 0 0 0.953 31 0.73
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
10 10 A 0 3 0 0 0 0 0 0 0 0 0 0 0 0 64 33 0 0 0 0 39 0 0 0.745 24 0.70
11 11 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
12 12 A 0 90 0 0 0 10 0 0 0 0 0 0 0 0 0 0 0 0 0 0 39 0 0 0.331 11 0.85
13 13 A 0 0 0 74 0 0 0 0 0 0 0 0 0 0 0 23 3 0 0 0 39 0 0 0.653 21 0.58
14 14 A 0 0 0 0 0 0 0 0 0 8 0 0 0 0 10 44 5 33 0 0 39 0 0 1.311 43 0.41
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 10 3 0 0 21 67 0 0 0 0 39 0 0 0.923 30 0.63
17 17 A 3 3 0 0 0 0 0 0 8 0 10 5 0 5 41 13 13 0 0 0 39 0 0 1.816 60 0.27
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 97 39 0 0 0.119 3 0.97
19 19 A 0 0 0 0 0 0 0 0 0 0 90 3 0 0 3 0 0 0 0 5 39 0 0 0.437 14 0.80
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 39 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
22 22 A 0 62 0 10 3 0 0 0 0 26 0 0 0 0 0 0 0 0 0 0 39 0 0 0.975 32 0.40
23 23 A 0 13 0 0 0 0 0 26 51 5 0 3 0 0 3 0 0 0 0 0 39 0 0 1.295 43 0.37
24 24 A 0 0 0 0 0 0 0 13 18 0 0 3 0 0 0 5 18 31 0 13 39 0 0 1.752 58 0.37
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
26 26 A 26 0 62 0 0 0 0 0 0 0 0 8 0 0 3 3 0 0 0 0 39 0 0 1.033 34 0.64
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
28 28 A 10 36 0 5 0 0 0 3 0 0 0 0 0 0 21 8 13 5 0 0 39 0 0 1.786 59 0.17
29 29 A 0 0 0 0 0 0 0 18 8 5 5 0 0 0 5 10 0 41 0 8 39 0 0 1.759 58 0.33
30 30 A 0 0 0 0 0 0 0 10 0 0 10 0 0 21 0 0 8 8 41 3 39 4 3 1.646 54 0.38
31 31 A 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 0 0 3 0 0 35 0 0 0.130 4 0.96
32 32 A 0 0 0 0 41 0 49 0 0 0 0 0 0 10 0 0 0 0 0 0 39 0 0 0.949 31 0.76
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
13 25 26 1 dIg
33 25 26 1 qDg
34 25 26 1 hIe
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