Complet list of 1fd6 hssp file
Complete list of 1fd6.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1FD6
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 PROTEIN BINDING 19-JUL-00 1FD6
COMPND MOL_ID: 1; MOLECULE: IMMUNOGLOBULIN G BINDING PROTEIN G; CHAIN: A; FRA
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: STREPTOCOCCUS SP.; ORGANISM_TAXID: 130
AUTHOR S.A.ROSS,C.A.SARISKY,A.SU,S.L.MAYO
DBREF 1FD6 A 2 57 UNP P19909 SPG2_STRSG 302 357
SEQLENGTH 57
NCHAIN 1 chain(s) in 1FD6 data set
NALIGN 25
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 : Q54181_STRSG2OED 0.93 1.00 1 57 59 115 57 0 0 185 Q54181 Protein G' OS=Streptococcus sp. group G GN=Protein G'gene PE=1 SV=1
2 : C5WHI8_STRDG 0.86 0.93 1 57 371 427 57 0 0 523 C5WHI8 Immunoglobulin G-binding protein OS=Streptococcus dysgalactiae subsp. equisimilis (strain GGS_124) GN=spg PE=3 SV=1
3 : E8QBR8_STRED 0.86 0.93 1 57 296 352 57 0 0 448 E8QBR8 IgG binding protein Zag OS=Streptococcus dysgalactiae subsp. equisimilis (strain ATCC 12394 / D166B) GN=SDE12394_07285 PE=3 SV=1
4 : F5U588_STREQ 0.86 0.93 1 57 87 143 57 0 0 239 F5U588 Putative immunoglobulin G-binding protein G (Fragment) OS=Streptococcus dysgalactiae subsp. equisimilis SK1249 GN=HMPREF9964_0770 PE=4 SV=1
5 : F9NHM5_STREQ 0.86 0.93 1 57 270 326 57 0 0 422 F9NHM5 Immunoglobulin G-binding protein G OS=Streptococcus dysgalactiae subsp. equisimilis SK1250 GN=spg PE=4 SV=1
6 : K4Q980_STREQ 0.86 0.93 1 57 371 427 57 0 0 523 K4Q980 Immunoglobulin G-binding protein G OS=Streptococcus dysgalactiae subsp. equisimilis AC-2713 GN=spg PE=3 SV=1
7 : M4YXE4_STREQ 0.86 0.93 1 57 308 364 57 0 0 460 M4YXE4 Immunoglobulin G-binding protein OS=Streptococcus dysgalactiae subsp. equisimilis RE378 GN=spg PE=3 SV=1
8 : Q53291_FINMA2ZW0 0.86 0.93 1 57 398 454 57 0 0 455 Q53291 Protein LG (Fragment) OS=Finegoldia magna PE=1 SV=1
9 : Q53337_9STRE 0.86 0.93 1 57 1 57 57 0 0 60 Q53337 Protein G IgG Fc binding domain OS=Streptococcus sp. CMCC 32138 GN=PGFB PE=4 SV=1
10 : SPG1_STRSG 2RPV 0.86 0.93 1 57 296 352 57 0 0 448 P06654 Immunoglobulin G-binding protein G OS=Streptococcus sp. group G GN=spg PE=1 SV=1
11 : SPG2_STRSG 1ZXH 0.86 0.93 1 57 441 497 57 0 0 593 P19909 Immunoglobulin G-binding protein G OS=Streptococcus sp. group G GN=spg PE=1 SV=1
12 : U3TN53_STREQ 0.86 0.93 1 57 397 453 57 0 0 532 U3TN53 Immunoglobulin G-binding protein OS=Streptococcus dysgalactiae subsp. equisimilis 167 GN=SDSE167_1496 PE=4 SV=1
13 : E7Q004_STRDY 0.84 0.93 1 57 362 418 57 0 0 519 E7Q004 Ig, alpha2-macroglobulin and albumin binding protein Zag OS=Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957 GN=SDD27957_06725 PE=3 SV=1
14 : Q53974_STRDY 0.84 0.93 1 57 256 312 57 0 0 413 Q53974 Mag protein (Precursor) OS=Streptococcus dysgalactiae GN=mag PE=3 SV=1
15 : Q53975_STRDY 0.84 0.93 1 57 502 558 57 0 0 664 Q53975 Streptococcal surface protein (Precursor) OS=Streptococcus dysgalactiae GN=mig PE=3 SV=1
16 : Q93EM8_STRDY 0.82 0.91 1 57 502 558 57 0 0 669 Q93EM8 Mig (Precursor) OS=Streptococcus dysgalactiae PE=3 SV=1
17 : B4U242_STREM 0.72 0.89 1 57 314 370 57 0 0 445 B4U242 IgG binding protein Zag OS=Streptococcus equi subsp. zooepidemicus (strain MGCS10565) GN=zag PE=3 SV=1
18 : Q76K19_STRSZ 0.72 0.89 1 57 302 358 57 0 0 433 Q76K19 Cell surface protein OS=Streptococcus equi subsp. zooepidemicus GN=zag PE=3 SV=2
19 : T0I4N1_STRSZ 0.72 0.89 1 57 302 358 57 0 0 433 T0I4N1 IgG binding protein Zag OS=Streptococcus equi subsp. zooepidemicus S31A1 GN=zag PE=3 SV=1
20 : C0MA37_STRE4 0.70 0.89 1 57 298 354 57 0 0 429 C0MA37 Ig, alpha2-macroglobulin and albumin binding protein Eag OS=Streptococcus equi subsp. equi (strain 4047) GN=SEQ_0721 PE=3 SV=1
21 : C0MCK9_STRS7 0.70 0.89 1 57 298 354 57 0 0 429 C0MCK9 Ig, alpha2-macroglobulin and albumin binding protein Zag (Precursor) OS=Streptococcus equi subsp. zooepidemicus (strain H70) GN=SZO_13070 PE=3 SV=1
22 : F8INR7_STREC 0.70 0.89 1 57 298 354 57 0 0 429 F8INR7 Cell surface protein OS=Streptococcus equi subsp. zooepidemicus (strain ATCC 35246 / C74-63) GN=SeseC_00850 PE=3 SV=1
23 : Q56212_STRSZ 0.70 0.89 1 57 298 354 57 0 0 429 Q56212 Cell surface protein (Precursor) OS=Streptococcus equi subsp. zooepidemicus PE=3 SV=1
24 : K9E8M0_9LACT 0.52 0.68 15 57 458 501 44 1 1 598 K9E8M0 YSIRK family Gram-positive signal peptide (Fragment) OS=Alloiococcus otitis ATCC 51267 GN=HMPREF9698_01324 PE=4 SV=1
25 : E4KPW8_9LACT 0.38 0.62 3 57 43 98 56 1 1 100 E4KPW8 B domain protein OS=Eremococcus coleocola ACS-139-V-Col8 GN=HMPREF9257_1607 PE=4 SV=1
## ALIGNMENTS 1 - 25
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A M 0 0 162 24 31 VVVVVVVVMVVVLLLLLLLLLLL
2 2 A T B -A 21 0A 34 24 0 TTTTTTTTTTTTTTTTTTTTTTT
3 3 A T - 0 0 90 25 0 TTTTTTTTTTTTTTTTTTTTTTT T
4 4 A F - 0 0 2 25 0 YYYYYYYYYYYYYYYYYYYYYYY Y
5 5 A K E -B 18 0B 74 25 32 KKKKKKKKKKKKKKKKRRRRRRR K
6 6 A L E -Bc 17 53B 0 25 0 LLLLLLLLLLLLLLLLLLLLLLL L
7 7 A I E -B 16 0B 43 25 2 VVVVVVVVVVVVVVVVVVVVVVV V
8 8 A I + 0 0 8 25 7 IIIIIIIIIIIIIIIIIIIIIII V
9 9 A N B +e 56 0C 69 25 50 NNNNNNNNNNNNNNNNKKKKKKK N
10 10 A G S S- 0 0 13 25 16 GGGGGGGGGGGGGGGGGGGGGGG S
11 11 A K S S+ 0 0 184 25 92 KKKKKKKKKKKKKKKKVVVVVAV E
12 12 A T S S+ 0 0 87 25 23 TTTTTTTTTTTTTTTTTTTTTTT D
13 13 A L - 0 0 59 25 42 LLLLLLLLLLLLLLLLFFFFFFF A
14 14 A K + 0 0 171 25 74 KKKKKKKKKKKKKKKKSSSSSSS Q
15 15 A G S S- 0 0 39 26 27 GGGGGGGGGGGGGGGGGGGGGGGGI
16 16 A E E -B 7 0B 111 26 33 EEEEEEEEEEEEEEEEEEEEEEEAT
17 17 A T E -B 6 0B 45 26 18 TTTTTTTTTTTTTTTTTTTTTTTTS
18 18 A T E +B 5 0B 85 26 60 TTTTTTTTTTTTTTTTAAAASAATE
19 19 A T - 0 0 35 26 41 TTTTTTTTTTTTTTTTTTTTTTTVY
20 20 A E + 0 0 130 26 29 EKKKKKKKKKKKKKKKKKKKKKKKT
21 21 A A B -A 2 0A 3 26 4 AAAAAAAATAAAAAAAAAAAAAAAA
22 22 A V S S- 0 0 86 26 41 VVVVVVVVVVVVVVVVVVVVVVVSS
23 23 A D S >> S- 0 0 65 26 33 DDDDDDDDDDDDDDDDDDDDDDDSS
24 24 A A H 3> S+ 0 0 33 26 23 AAAAAAAAAAAAAAAVAAAAAAAAV
25 25 A A H 34 S+ 0 0 63 26 51 AEEEEEEEEEEEEEEEAAAAAAAEE
26 26 A T H <> S+ 0 0 58 26 42 TTTTTTTTTTTTTTTTTTTTTTTQL
27 27 A A H >X S+ 0 0 0 26 0 AAAAAAAAAAAAAAAAAAAAAAAAA
28 28 A E H 3X S+ 0 0 90 26 15 EEEEEEEEEEEEEEEEEEEEEEEEG
29 29 A K H 3> S+ 0 0 148 26 52 KKKKKKKKKKKKKKKKQQQQQQQKQ
30 30 A V H S+ 0 0 0 26 33 AAAAAAAAAAAAAAAAAAAAAAAVV
36 36 A N H <5S+ 0 0 101 26 0 NNNNNNNNNNNNNNNNNNNNNNNNN
37 37 A D H <5S+ 0 0 112 26 22 DDDDDDDDDDDDEEEEDDDDDDDEN
38 38 A N H <5S- 0 0 76 26 0 NNNNNNNNNNNNNNNNNNNNNNNNN
39 39 A G T <5 + 0 0 32 26 0 GGGGGGGGGGGGGGGGGGGGGGGGG
40 40 A I < + 0 0 2 26 25 VVVVVVVVVVVVVVVVIIIVVVVLL
41 41 A D + 0 0 113 26 66 DDDDDDDDDDDDDDDDTTTTTTTgg
42 42 A G S S- 0 0 18 26 52 GGGGGGGGGGGGGGGGGGGGGGGll
43 43 A E - 0 0 158 26 83 EVVVVVVVVVVVVVVVEEEEEEEEE
44 44 A W + 0 0 53 26 0 WWWWWWWWWWWWWWWWWWWWWWWWW
45 45 A T - 0 0 78 26 67 TTTTTTTTTTTTTTTTAAAAAAASS
46 46 A Y E -D 53 0B 92 26 0 YYYYYYYYYYYYYYYYYYYYYYYYY
47 47 A D E >>> -D 52 0B 77 26 0 DDDDDDDDDDDDDDDDDDDDDDDDD
48 48 A D T 345S+ 0 0 126 26 70 DDDDDDDDDDDDDDDDTTTAAAAEP
49 49 A A T 345S- 0 0 79 26 14 AAAAAAAAAAAAAAAAAAAAAAADA
50 50 A T T <45S- 0 0 100 26 0 TTTTTTTTTTTTTTTTTTTTTTTTT
51 51 A K T <5 + 0 0 78 26 31 KKKKKKKKKKKKKKKKKKKKKKKKY
52 52 A T E < - D 0 47B 15 26 0 TTTTTTTTTTTTTTTTTTTTTTTTT
53 53 A F E -cD 6 46B 12 26 0 FFFFFFFFFFFFFFFFFFFFFFFFF
54 54 A T + 0 0 29 26 0 TTTTTTTTTTTTTTTTTTTTTTTTT
55 55 A V - 0 0 0 26 33 VVVVVVVVVVVVVVVVVVVVVVVAA
56 56 A T B e 9 0C 69 26 15 TTTTTTTTTTTTTTTTTTTTTTTIT
57 57 A E 0 0 105 26 7 EEEEEEEEEEEEEEEEEEEEEEEED
## 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 46 46 0 8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 24 0 0 0.922 30 0.68
2 2 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 24 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
4 4 A 0 0 0 0 4 0 96 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.168 5 0.99
5 5 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 28 72 0 0 0 0 25 0 0 0.593 19 0.68
6 6 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
7 7 A 96 0 4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.168 5 0.98
8 8 A 4 0 96 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.168 5 0.93
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 28 0 0 72 0 25 0 0 0.593 19 0.50
10 10 A 0 0 0 0 0 0 0 96 0 0 4 0 0 0 0 0 0 0 0 0 25 0 0 0.168 5 0.84
11 11 A 24 0 0 0 0 0 0 0 4 0 0 0 0 0 0 68 0 4 0 0 25 0 0 0.862 28 0.08
12 12 A 0 0 0 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 4 25 0 0 0.168 5 0.77
13 13 A 0 68 0 0 28 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.747 24 0.57
14 14 A 0 0 0 0 0 0 0 0 0 0 28 0 0 0 0 68 4 0 0 0 25 0 0 0.747 24 0.25
15 15 A 0 0 4 0 0 0 0 96 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.73
16 16 A 0 0 0 0 0 0 0 0 4 0 0 4 0 0 0 0 0 92 0 0 26 0 0 0.325 10 0.67
17 17 A 0 0 0 0 0 0 0 0 0 0 4 96 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.82
18 18 A 0 0 0 0 0 0 0 0 23 0 4 69 0 0 0 0 0 4 0 0 26 0 0 0.844 28 0.39
19 19 A 4 0 0 0 0 0 4 0 0 0 0 92 0 0 0 0 0 0 0 0 26 0 0 0.325 10 0.58
20 20 A 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 88 0 8 0 0 26 0 0 0.431 14 0.70
21 21 A 0 0 0 0 0 0 0 0 96 0 0 4 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.96
22 22 A 92 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.58
23 23 A 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 92 26 0 0 0.271 9 0.66
24 24 A 8 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.77
25 25 A 0 0 0 0 0 0 0 0 35 0 0 0 0 0 0 0 0 65 0 0 26 0 0 0.645 21 0.48
26 26 A 0 4 0 0 0 0 0 0 0 0 0 92 0 0 0 0 4 0 0 0 26 0 0 0.325 10 0.57
27 27 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 96 0 0 26 0 0 0.163 5 0.85
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 69 31 0 0 0 26 0 0 0.617 20 0.47
30 30 A 8 0 0 0 0 0 8 0 65 0 0 19 0 0 0 0 0 0 0 0 26 0 0 0.989 33 0.19
31 31 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 31 69 0 0 0 0 26 0 0 0.617 20 0.67
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 92 0 4 4 26 0 0 0.325 10 0.75
34 34 A 0 0 0 0 4 0 96 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.99
35 35 A 8 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.66
36 36 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 26 0 0 0.000 0 1.00
37 37 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 4 77 26 0 0 0.644 21 0.77
38 38 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 26 0 0 0.000 0 1.00
39 39 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
40 40 A 77 8 15 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.687 22 0.74
41 41 A 0 0 0 0 0 0 0 8 0 0 0 27 0 0 0 0 0 0 0 65 26 0 2 0.828 27 0.33
42 42 A 0 8 0 0 0 0 0 92 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.48
43 43 A 58 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 42 0 0 26 0 0 0.681 22 0.17
44 44 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
45 45 A 0 0 0 0 0 0 0 0 27 0 8 65 0 0 0 0 0 0 0 0 26 0 0 0.828 27 0.33
46 46 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
47 47 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 26 0 0 0.000 0 1.00
48 48 A 0 0 0 0 0 0 0 0 15 4 0 12 0 0 0 0 0 4 0 65 26 0 0 1.066 35 0.30
49 49 A 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 0 0 0 4 26 0 0 0.163 5 0.86
50 50 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
51 51 A 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 96 0 0 0 0 26 0 0 0.163 5 0.68
52 52 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
53 53 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
54 54 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
55 55 A 92 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.66
56 56 A 0 0 4 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.84
57 57 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 96 0 4 26 0 0 0.163 5 0.92
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
24 28 485 1 gDl
25 40 82 1 gDl
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