HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 1.0 1991 PDBID T0059_SM_D DATE file generated on 24-Jul-98 SEQBASE temphssp PARAMETER CONVERTSEQ of T0059_SM_D THRESHOLD according to: ALL REFERENCE Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991). CONTACT e-mail (INTERNET) Schneider@EMBL-Heidelberg.DE or Sander@EMBL-Heidelberg.DE / fax +49-6221-387306 AVAILABLE Free academic use. Commercial users must apply for license. AVAILABLE No inclusion in other databanks without permission. HEADER COMPND SOURCE AUTHOR SEQLENGTH 75 NCHAIN 1 chain(s) in T0059_SM_D data set NALIGN 4 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 : EMBL/SWISSPROT identifier and alignment statistics NR. ID STRID %IDE %SIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCNUM PROTEIN 1 : 1_AT 0.33 0.00 4 75 1 72 72 0 0 72 2 : 2_SM 0.47 0.00 1 75 1 75 75 0 0 75 3 : 3_SM 0.69 0.00 14 75 1 62 62 0 0 62 4 : 4_CE 0.30 0.00 3 75 1 73 73 0 0 73 ## ALIGNMENTS 1 - 4 SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7 1 1 M 0 0 0 2 56 T 2 2 S 0 0 0 2 67 M 3 3 I 0 0 0 3 54 N M 4 4 G 0 0 0 4 46 MG V 5 5 V 0 0 0 4 22 LI L 6 6 P 0 0 0 4 0 PP P 7 7 I 0 0 0 4 22 LV L 8 8 K 0 0 0 4 36 SK S 9 9 V 0 0 0 4 15 LL L 10 10 L 0 0 0 4 0 LL L 11 11 H 0 0 0 4 42 RN K 12 12 E 0 0 0 4 36 TE T 13 13 A 0 0 0 4 0 AA A 14 14 E 0 0 0 5 27 QQRQ 15 15 G 0 0 0 5 26 GGSN 16 16 H 0 0 0 5 15 NHHH 17 17 I 0 0 0 5 49 PIMP 18 18 V 0 0 0 5 23 MVVM 19 19 T 0 0 0 5 52 LSTL 20 20 C 0 0 0 5 36 VLLV 21 21 E 0 0 0 5 0 EEEE 22 22 T 0 0 0 5 40 LLTL 23 23 N 0 0 0 5 49 KTVK 24 24 T 0 0 0 5 34 NTTN 25 25 G 0 0 0 5 0 GGGG 26 26 E 0 0 0 5 18 EAEE 27 27 V 0 0 0 5 33 TTVT 28 28 Y 0 0 0 5 0 YYYY 29 29 R 0 0 0 5 36 NRRN 30 30 G 0 0 0 5 0 GGGG 31 31 K 0 0 0 5 48 YKKH 32 32 L 0 0 0 5 0 LLLL 33 33 I 0 0 0 5 43 VVSK 34 34 E 0 0 0 5 31 NEEA 35 35 A 0 0 0 5 36 CSAC 36 36 E 0 0 0 5 13 DEED 37 37 D 0 0 0 5 36 TDDS 38 38 N 0 0 0 5 51 WSNW 39 39 M 0 0 0 5 0 MMMM 40 40 N 0 0 0 5 0 NNNN 41 41 C 0 0 0 5 36 IVCI 42 42 Q 0 0 0 5 21 HQQH 43 43 M 0 0 0 5 3 LLLL 44 44 S 0 0 0 5 52 RRAV 45 45 N 0 0 0 5 26 QDED 46 46 I 0 0 0 5 24 VVTV 47 47 T 0 0 0 5 24 IIVI 48 48 V 0 0 0 5 48 CAVF 49 49 T 0 0 0 5 0 TTTT 50 50 Y 0 0 0 5 59 SEFS 51 51 R 0 0 0 5 32 KPRK 52 52 D 0 0 0 5 12 DQDD 53 53 G 0 0 0 5 0 gGGg 54 54 R 0 0 0 5 34 rARk 55 55 V 0 0 0 5 43 LVSF 56 56 A 0 0 0 5 62 WTHF 57 57 Q 0 0 0 5 36 RHQK 58 58 L 0 0 0 5 5 MMLM 59 59 E 0 0 0 5 39 TDDS 60 60 Q 0 0 0 5 29 EQNE 61 61 V 0 0 0 5 40 CIVA 62 62 Y 0 0 0 5 2 YFFY 63 63 I 0 0 0 5 9 IVIV 64 64 R 0 0 0 5 0 RRRR 65 65 G 0 0 0 5 0 GGGG 66 66 S 0 0 0 5 25 NSNS 67 67 K 0 0 0 5 44 TQKT 68 68 I 0 0 0 5 0 IIII 69 69 R 0 0 0 5 18 KKRK 70 70 F 0 0 0 5 3 YFFY 71 71 L 0 0 0 5 13 LIML 72 72 I 0 0 0 5 50 RVIR 73 73 L 0 0 0 5 20 VVLI 74 74 P 0 0 0 5 0 PPPP 75 75 D 0 0 0 5 8 DDDE ## 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 0 0 0 50 0 0 0 0 0 0 0 50 0 0 0 0 0 0 0 0 2 0 0 0.693 100 1.00 2 2 0 0 0 50 0 0 0 0 0 0 50 0 0 0 0 0 0 0 0 0 2 0 0 0.693 100 1.00 3 3 0 0 33 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 3 0 0 1.099 100 1.00 4 4 25 0 0 25 0 0 0 50 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 1.040 75 1.00 5 5 25 50 25 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 1.040 75 1.00 6 6 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00 7 7 25 50 25 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 1.040 75 1.00 8 8 0 0 0 0 0 0 0 0 0 0 50 0 0 0 0 50 0 0 0 0 4 0 0 0.693 50 1.00 9 9 25 75 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.562 41 1.00 10 10 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00 11 11 0 0 0 0 0 0 0 0 0 0 0 0 0 25 25 25 0 0 25 0 4 0 0 1.386 100 1.00 12 12 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 0 0 50 0 0 4 0 0 0.693 50 1.00 13 13 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00 14 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 0 60 20 0 0 5 0 0 0.950 59 1.00 15 15 0 0 0 0 0 0 0 60 0 0 20 0 0 0 0 0 0 0 20 0 5 0 0 0.950 59 1.00 16 16 0 0 0 0 0 0 0 0 0 0 0 0 0 80 0 0 0 0 20 0 5 0 0 0.500 31 1.00 17 17 0 0 40 20 0 0 0 0 0 40 0 0 0 0 0 0 0 0 0 0 5 0 0 1.055 66 1.00 18 18 60 0 0 40 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.673 42 1.00 19 19 0 40 0 0 0 0 0 0 0 0 20 40 0 0 0 0 0 0 0 0 5 0 0 1.055 66 1.00 20 20 40 40 0 0 0 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 5 0 0 1.055 66 1.00 21 21 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 5 0 0 0.000 0 1.00 22 22 0 60 0 0 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 0 5 0 0 0.673 42 1.00 23 23 20 0 0 0 0 0 0 0 0 0 0 20 0 0 0 40 0 0 20 0 5 0 0 1.332 83 1.00 24 24 0 0 0 0 0 0 0 0 0 0 0 60 0 0 0 0 0 0 40 0 5 0 0 0.673 42 1.00 25 25 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 26 26 0 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 0 80 0 0 5 0 0 0.500 31 1.00 27 27 40 0 0 0 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 0 5 0 0 0.673 42 1.00 28 28 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 29 29 0 0 0 0 0 0 0 0 0 0 0 0 0 0 60 0 0 0 40 0 5 0 0 0.673 42 1.00 30 30 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 31 31 0 0 0 0 0 0 20 0 0 0 0 0 0 20 0 60 0 0 0 0 5 0 0 0.950 59 1.00 32 32 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 33 33 40 0 20 0 0 0 0 0 0 0 20 0 0 0 0 20 0 0 0 0 5 0 0 1.332 83 1.00 34 34 0 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 0 60 20 0 5 0 0 0.950 59 1.00 35 35 0 0 0 0 0 0 0 0 40 0 20 0 40 0 0 0 0 0 0 0 5 0 0 1.055 66 1.00 36 36 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 60 0 40 5 0 0 0.673 42 1.00 37 37 0 0 0 0 0 0 0 0 0 0 20 20 0 0 0 0 0 0 0 60 5 0 0 0.950 59 1.00 38 38 0 0 0 0 0 40 0 0 0 0 20 0 0 0 0 0 0 0 40 0 5 0 0 1.055 66 1.00 39 39 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 40 40 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 5 0 0 0.000 0 1.00 41 41 20 0 40 0 0 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 5 0 0 1.055 66 1.00 42 42 0 0 0 0 0 0 0 0 0 0 0 0 0 40 0 0 60 0 0 0 5 0 0 0.673 42 1.00 43 43 0 80 0 20 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.500 31 1.00 44 44 20 0 0 0 0 0 0 0 20 0 20 0 0 0 40 0 0 0 0 0 5 0 0 1.332 83 1.00 45 45 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 20 20 40 5 0 0 1.332 83 1.00 46 46 60 0 20 0 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 0 5 0 0 0.950 59 1.00 47 47 20 0 60 0 0 0 0 0 0 0 0 20 0 0 0 0 0 0 0 0 5 0 0 0.950 59 1.00 48 48 40 0 0 0 20 0 0 0 20 0 0 0 20 0 0 0 0 0 0 0 5 0 0 1.332 83 1.00 49 49 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 50 50 0 0 0 0 20 0 20 0 0 0 40 0 0 0 0 0 0 20 0 0 5 0 0 1.332 83 1.00 51 51 0 0 0 0 0 0 0 0 0 20 0 0 0 0 40 40 0 0 0 0 5 0 0 1.055 66 1.00 52 52 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 0 0 80 5 0 0 0.500 31 1.00 53 53 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 2 0.000 0 1.00 54 54 0 0 0 0 0 0 0 0 20 0 0 0 0 0 60 20 0 0 0 0 5 0 0 0.950 59 1.00 55 55 40 20 0 0 20 0 0 0 0 0 20 0 0 0 0 0 0 0 0 0 5 0 0 1.332 83 1.00 56 56 0 0 0 0 20 20 0 0 20 0 0 20 0 20 0 0 0 0 0 0 5 0 0 1.609 100 1.00 57 57 0 0 0 0 0 0 0 0 0 0 0 0 0 20 20 20 40 0 0 0 5 0 0 1.332 83 1.00 58 58 0 40 0 60 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.673 42 1.00 59 59 0 0 0 0 0 0 0 0 0 0 20 20 0 0 0 0 0 20 0 40 5 0 0 1.332 83 1.00 60 60 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 40 40 20 0 5 0 0 1.055 66 1.00 61 61 40 0 20 0 0 0 0 0 20 0 0 0 20 0 0 0 0 0 0 0 5 0 0 1.332 83 1.00 62 62 0 0 0 0 40 0 60 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.673 42 1.00 63 63 40 0 60 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.673 42 1.00 64 64 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 5 0 0 0.000 0 1.00 65 65 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 66 66 0 0 0 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 40 0 5 0 0 0.673 42 1.00 67 67 0 0 0 0 0 0 0 0 0 0 0 40 0 0 0 40 20 0 0 0 5 0 0 1.055 66 1.00 68 68 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 69 69 0 0 0 0 0 0 0 0 0 0 0 0 0 0 40 60 0 0 0 0 5 0 0 0.673 42 1.00 70 70 0 0 0 0 60 0 40 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.673 42 1.00 71 71 0 60 20 20 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.950 59 1.00 72 72 20 0 40 0 0 0 0 0 0 0 0 0 0 0 40 0 0 0 0 0 5 0 0 1.055 66 1.00 73 73 40 40 20 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 1.055 66 1.00 74 74 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00 75 75 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 0 80 5 0 0 0.500 31 1.00 ## INSERTION LIST AliNo IPOS JPOS Len Sequence 1 53 50 1 gDr 4 53 51 1 gDk //