Complet list of 1hji hssp file
Complete list of 1hji.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1HJI
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 BACTERIOPHAGE HK022 15-JAN-01 1HJI
COMPND MOL_ID: 1; MOLECULE: NUN-PROTEIN; CHAIN: B; FRAGMENT: N-TERMINAL BINDI
SOURCE MOL_ID: 1; SYNTHETIC: YES; ORGANISM_SCIENTIFIC: BACTERIOPHAGE HK022; O
AUTHOR C.FABER,M.SCHAERPF,T.BECKER,H.STICHT,P.ROESCH
DBREF 1HJI A 1 15 PDB 1HJI 1HJI 1 15
DBREF 1HJI B 19 44 UNP P18683 VNUN_BPHK0 22 47
SEQLENGTH 26
NCHAIN 1 chain(s) in 1HJI data set
NALIGN 31
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 : A7ZWM2_ECOHS 1.00 1.00 1 26 24 49 26 0 0 114 A7ZWM2 Uncharacterized protein OS=Escherichia coli O9:H4 (strain HS) GN=EcHS_A0287 PE=4 SV=1
2 : C8TUL5_ECO26 1.00 1.00 1 26 20 45 26 0 0 110 C8TUL5 Putative phage regulatory protein OS=Escherichia coli O26:H11 (strain 11368 / EHEC) GN=ECO26_3206 PE=4 SV=1
3 : D3QP35_ECOCB 1.00 1.00 1 26 24 49 26 0 0 114 D3QP35 Uncharacterized protein OS=Escherichia coli O55:H7 (strain CB9615 / EPEC) GN=G2583_3261 PE=4 SV=1
4 : I4PMI2_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 I4PMI2 Uncharacterized protein OS=Escherichia coli O111:H11 str. CVM9534 GN=ECO9534_01688 PE=4 SV=1
5 : I4QGM5_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 I4QGM5 Uncharacterized protein OS=Escherichia coli O111:H11 str. CVM9545 GN=ECO9545_07273 PE=4 SV=1
6 : I4RPT0_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 I4RPT0 Uncharacterized protein OS=Escherichia coli O26:H11 str. CVM9942 GN=ECO9942_16668 PE=4 SV=1
7 : I4RSA6_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 I4RSA6 Uncharacterized protein OS=Escherichia coli O26:H11 str. CVM10026 GN=ECO10026_02826 PE=4 SV=1
8 : K4WTX1_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 K4WTX1 Uncharacterized protein OS=Escherichia coli O111:H11 str. CVM9553 GN=ECO9553_26460 PE=4 SV=1
9 : K4WWM5_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 K4WWM5 Uncharacterized protein OS=Escherichia coli O26:H11 str. CVM10021 GN=ECO10021_14221 PE=4 SV=1
10 : K4X446_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 K4X446 Uncharacterized protein OS=Escherichia coli O111:H11 str. CVM9455 GN=ECO9455_20747 PE=4 SV=1
11 : K4X736_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 K4X736 Uncharacterized protein OS=Escherichia coli O26:H11 str. CVM10224 GN=ECO10224_24102 PE=4 SV=1
12 : K4XT53_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 K4XT53 Uncharacterized protein OS=Escherichia coli O26:H11 str. CVM10030 GN=ECO10030_12079 PE=4 SV=1
13 : K4XTH7_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 K4XTH7 Uncharacterized protein OS=Escherichia coli O26:H11 str. CVM9952 GN=ECO9952_15321 PE=4 SV=1
14 : K7PJW2_9CAUD 1.00 1.00 1 26 22 47 26 0 0 112 K7PJW2 Transcription termination factor Nun OS=Enterobacteria phage mEp235 GN=mEp235_038 PE=4 SV=1
15 : K7PKH2_9CAUD 1.00 1.00 1 26 20 45 26 0 0 110 K7PKH2 Transcription regulatory protein OS=Enterobacteria phage mEpX1 GN=mEpX1_039 PE=4 SV=1
16 : M5HM34_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 M5HM34 Uncharacterized protein OS=Escherichia coli O26:H11 str. CFSAN001629 GN=CFSAN001629_22380 PE=4 SV=1
17 : M5I2E1_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 M5I2E1 Uncharacterized protein OS=Escherichia coli O111:H11 str. CFSAN001630 GN=CFSAN001630_17946 PE=4 SV=1
18 : T5ML27_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T5ML27 Transcription termination factor nun OS=Escherichia coli HVH 2 (4-6943160) GN=G682_00748 PE=4 SV=1
19 : T6V5Q7_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T6V5Q7 Transcription termination factor nun OS=Escherichia coli HVH 115 (4-4465989) GN=G777_01357 PE=4 SV=1
20 : T6VD81_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T6VD81 Transcription termination factor nun OS=Escherichia coli HVH 115 (4-4465997) GN=G776_00273 PE=4 SV=1
21 : T8YRM2_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T8YRM2 Transcription termination factor nun OS=Escherichia coli UMEA 3185-1 GN=G934_00801 PE=4 SV=1
22 : T9DHR9_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T9DHR9 Transcription termination factor nun OS=Escherichia coli UMEA 3212-1 GN=G943_01131 PE=4 SV=1
23 : T9JDE8_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T9JDE8 Transcription termination factor nun OS=Escherichia coli UMEA 3329-1 GN=G967_02587 PE=4 SV=1
24 : T9L7S7_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T9L7S7 Transcription termination factor nun OS=Escherichia coli UMEA 3341-1 GN=G970_02382 PE=4 SV=1
25 : T9R532_ECOLX 1.00 1.00 1 26 20 45 26 0 0 110 T9R532 Transcription termination factor nun OS=Escherichia coli UMEA 3694-1 GN=G989_00347 PE=4 SV=1
26 : V0WSL4_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 V0WSL4 Uncharacterized protein OS=Escherichia coli 908522 GN=HMPREF1606_01000 PE=4 SV=1
27 : V4W186_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 V4W186 Transcriptional regulator OS=Escherichia coli ATCC BAA-2193 GN=Q456_0228435 PE=4 SV=1
28 : VNUN_BPHK0 1HJI 1.00 1.00 1 26 22 47 26 0 0 112 P18683 Transcription termination factor nun OS=Enterobacteria phage HK022 GN=nun PE=1 SV=1
29 : W1TH12_ECOLX 1.00 1.00 1 26 22 47 26 0 0 112 W1TH12 Transcriptional regulator OS=Escherichia coli ATCC BAA-2196 GN=Q457_03255 PE=4 SV=1
30 : U9Y2V9_ECOLX 0.96 1.00 1 26 20 45 26 0 0 110 U9Y2V9 Uncharacterized protein OS=Escherichia coli 113303 GN=HMPREF1591_00694 PE=4 SV=1
31 : G8C7L7_9CAUD 0.85 0.92 1 26 22 47 26 0 0 112 G8C7L7 Nun OS=Escherichia phage HK75 GN=HK75_36 PE=4 SV=1
## ALIGNMENTS 1 - 31
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 19 B D 0 0 218 32 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDD
2 20 B R - 0 0 224 32 0 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
3 21 B G S S+ 0 0 83 32 69 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGC
4 22 B L S S- 0 0 102 32 10 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLIL
5 23 B T > - 0 0 86 32 0 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6 24 B S H > S+ 0 0 97 32 0 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
7 25 B R H > S+ 0 0 162 32 59 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRQ
8 26 B D H >> S+ 0 0 45 32 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDD
9 27 B R H 3X S+ 0 0 201 32 0 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
10 28 B R H 3X S+ 0 0 153 32 0 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
11 29 B R H << S+ 0 0 152 32 0 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
12 30 B I H >X S+ 0 0 89 32 0 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
13 31 B A H >X S+ 0 0 17 32 0 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14 32 B R H 3X>S+ 0 0 76 32 0 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
15 33 B W H <45S+ 0 0 168 32 0 WWWWWWWWWWWWWWWWWWWWWWWWWWWWWWW
16 34 B E H X>S+ 0 0 140 32 0 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
19 37 B I I 3>XS+ 0 0 70 32 48 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIM
20 38 B A I 3X5S+ 0 0 57 32 0 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21 39 B Y I